Perform a k-fold cross-validation using the function bn.cv and scan every node to estimate its prediction error. For details and examples regarding the statistical assesment of an inferred model, we refer to the Vignette Section 7.
A reconstructed model (the output of tronco.capri)
The names of the selected regularizers (bic, aic or caprese)
a list of event
a positive integer number, the number of times cross-validation will be run
a positive integer number, the number of groups into which the data will be split
Percentage of cores to use. coresRate * (numCores - 1)
A parameter to disable/enable verbose messages.
data(test_model)
tronco.kfold.prederr(test_model, k = 2, runs = 2, cores.ratio = 0)
#> *** Using 1 cores via "parallel"
#> Scanning 30 nodes for their prediction error (all parents).
#> Regularizer: capri_bic
#> *** Reducing results
#> Scanning 30 nodes for their prediction error (all parents).
#> Regularizer: capri_aic
#> *** Reducing results
#> $genotypes
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31 gene 32 gene 33 gene 34
#> patient 1 0 0 0 1 0 0 0 0 0
#> patient 2 0 0 0 1 0 0 0 0 1
#> patient 3 0 0 0 1 1 0 0 0 0
#> patient 4 0 0 0 1 0 0 0 0 1
#> patient 5 0 0 0 1 0 0 0 0 0
#> patient 6 0 0 0 1 0 0 0 0 0
#> patient 7 0 0 0 1 0 0 0 0 0
#> patient 8 0 0 0 1 0 0 0 0 0
#> patient 9 0 0 1 1 0 0 0 0 0
#> patient 10 0 0 0 1 0 0 0 0 0
#> patient 11 0 0 0 1 0 0 0 0 0
#> patient 12 0 0 0 1 1 0 0 0 0
#> patient 13 0 0 0 1 0 0 0 0 0
#> patient 14 0 0 0 1 0 0 0 0 0
#> patient 15 0 0 0 0 0 0 0 0 0
#> patient 16 0 0 0 0 0 0 0 0 0
#> patient 17 0 0 0 0 1 0 0 1 0
#> patient 18 0 0 0 0 0 0 0 0 0
#> patient 19 0 0 0 0 0 0 0 0 0
#> patient 20 0 0 0 0 0 0 0 1 0
#> patient 21 0 0 1 0 0 0 1 0 0
#> patient 22 0 0 0 0 0 0 0 0 0
#> patient 23 1 0 0 0 0 0 0 1 0
#> patient 24 1 0 1 0 0 0 0 1 1
#> patient 25 1 0 0 0 0 0 0 0 0
#> patient 26 0 0 0 0 0 0 0 0 0
#> patient 27 0 1 1 0 0 0 1 0 0
#> patient 28 0 0 0 0 0 0 0 0 0
#> patient 29 0 0 1 0 0 0 0 1 0
#> patient 30 0 0 0 0 0 0 0 0 0
#> patient 31 0 0 0 0 0 0 0 0 0
#> patient 32 0 0 1 0 0 1 0 0 0
#> patient 33 0 0 0 0 0 0 0 0 0
#> patient 34 0 0 0 0 0 0 1 0 0
#> patient 35 0 0 0 0 0 0 0 0 0
#> patient 36 0 0 0 0 0 0 0 0 0
#> patient 37 0 0 0 0 0 0 0 0 0
#> patient 38 0 0 0 0 0 0 0 1 0
#> patient 39 0 0 1 0 0 0 0 0 0
#> patient 40 0 0 0 0 0 0 0 0 0
#> gene 36 gene 40 gene 44 gene 47 gene 49 gene 50 gene 51 gene 52
#> patient 1 0 0 0 0 0 0 0 0
#> patient 2 0 0 0 0 0 0 0 0
#> patient 3 0 0 0 0 0 0 0 0
#> patient 4 0 0 0 0 0 0 0 0
#> patient 5 0 0 0 0 0 0 0 0
#> patient 6 0 0 0 0 0 0 0 0
#> patient 7 0 0 0 0 0 1 0 0
#> patient 8 0 0 0 0 0 0 0 0
#> patient 9 0 0 0 0 0 0 0 0
#> patient 10 0 0 0 0 0 0 0 0
#> patient 11 0 0 0 0 0 0 0 0
#> patient 12 0 0 1 0 0 0 0 0
#> patient 13 0 0 0 0 0 0 0 0
#> patient 14 0 0 0 0 0 0 0 0
#> patient 15 1 0 0 0 0 0 0 0
#> patient 16 0 0 0 0 0 0 0 0
#> patient 17 0 0 0 0 0 0 0 0
#> patient 18 0 0 0 0 0 0 0 0
#> patient 19 0 0 0 0 0 0 0 1
#> patient 20 0 0 0 0 0 0 1 0
#> patient 21 0 0 0 0 0 0 0 0
#> patient 22 0 1 0 0 0 0 0 0
#> patient 23 0 0 0 0 0 0 0 0
#> patient 24 0 0 0 0 0 0 0 0
#> patient 25 0 0 0 0 0 0 0 0
#> patient 26 0 0 0 0 0 0 0 0
#> patient 27 0 0 0 0 0 0 0 0
#> patient 28 0 0 0 0 0 0 0 0
#> patient 29 0 0 0 0 0 0 0 0
#> patient 30 0 0 0 0 0 0 0 0
#> patient 31 0 0 0 1 0 0 0 0
#> patient 32 0 0 0 0 0 0 0 0
#> patient 33 0 0 0 0 0 0 0 0
#> patient 34 0 0 0 0 0 0 0 0
#> patient 35 0 0 0 0 0 0 0 0
#> patient 36 0 0 0 0 0 0 0 0
#> patient 37 0 0 0 0 0 0 0 0
#> patient 38 0 0 0 0 1 0 0 0
#> patient 39 0 0 0 0 0 0 0 0
#> patient 40 0 0 0 0 0 0 0 0
#> gene 53 gene 54 gene 55 gene 56 gene 66 gene 69 gene 77 gene 88
#> patient 1 0 0 0 0 0 0 0 0
#> patient 2 0 0 0 0 0 0 0 0
#> patient 3 0 0 0 0 0 0 0 0
#> patient 4 0 0 0 0 0 0 0 0
#> patient 5 0 0 1 0 0 0 0 0
#> patient 6 0 0 0 0 0 0 0 0
#> patient 7 0 0 0 0 0 0 0 0
#> patient 8 0 0 0 0 0 0 0 0
#> patient 9 0 0 0 0 0 0 0 0
#> patient 10 0 0 0 0 0 0 0 0
#> patient 11 0 0 0 0 0 0 0 0
#> patient 12 0 0 0 0 0 0 0 1
#> patient 13 0 0 1 0 0 0 0 1
#> patient 14 0 0 0 0 0 0 0 0
#> patient 15 0 0 0 0 0 0 0 0
#> patient 16 0 1 0 0 0 0 0 0
#> patient 17 1 0 0 0 0 0 0 0
#> patient 18 0 0 0 0 0 0 0 0
#> patient 19 0 0 0 0 0 0 0 0
#> patient 20 0 0 0 0 0 0 0 0
#> patient 21 0 0 0 0 0 0 0 0
#> patient 22 0 0 0 0 0 0 0 0
#> patient 23 0 0 0 1 0 0 0 0
#> patient 24 0 0 0 0 0 0 0 0
#> patient 25 0 0 0 1 0 1 0 0
#> patient 26 0 0 0 0 0 0 0 1
#> patient 27 0 0 0 0 0 0 0 0
#> patient 28 0 0 0 0 0 0 0 0
#> patient 29 0 0 0 0 0 0 0 1
#> patient 30 0 0 1 0 0 0 0 0
#> patient 31 0 0 0 0 0 0 1 0
#> patient 32 0 0 0 0 0 0 0 0
#> patient 33 0 0 0 0 0 0 0 0
#> patient 34 0 0 1 0 1 0 1 0
#> patient 35 0 0 0 0 0 0 0 0
#> patient 36 0 0 0 0 0 0 0 0
#> patient 37 0 0 0 0 0 0 0 0
#> patient 38 0 0 0 0 0 0 0 0
#> patient 39 0 0 0 0 0 0 0 0
#> patient 40 0 0 0 0 0 0 0 1
#> gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> patient 1 0 0 0 0 0
#> patient 2 0 1 0 0 0
#> patient 3 0 0 0 0 0
#> patient 4 0 1 0 0 0
#> patient 5 0 0 1 0 1
#> patient 6 1 0 0 1 0
#> patient 7 0 1 0 0 0
#> patient 8 0 1 0 0 0
#> patient 9 0 0 0 0 0
#> patient 10 0 0 0 0 0
#> patient 11 0 0 0 0 0
#> patient 12 0 0 0 0 0
#> patient 13 0 0 0 0 1
#> patient 14 0 0 1 0 1
#> patient 15 0 0 0 0 0
#> patient 16 0 0 0 0 0
#> patient 17 0 0 0 1 0
#> patient 18 0 0 0 0 0
#> patient 19 0 0 0 0 0
#> patient 20 0 0 0 1 0
#> patient 21 0 0 0 0 0
#> patient 22 0 0 0 0 0
#> patient 23 0 0 0 1 0
#> patient 24 0 0 0 1 0
#> patient 25 0 0 0 0 0
#> patient 26 0 0 0 0 0
#> patient 27 0 0 0 1 0
#> patient 28 0 0 0 0 0
#> patient 29 0 0 0 1 0
#> patient 30 0 0 0 0 1
#> patient 31 0 0 0 0 0
#> patient 32 0 0 0 0 0
#> patient 33 0 0 0 0 0
#> patient 34 0 0 0 0 1
#> patient 35 0 0 1 0 1
#> patient 36 0 0 0 0 0
#> patient 37 0 0 0 0 0
#> patient 38 0 0 0 1 0
#> patient 39 0 0 0 0 0
#> patient 40 0 0 0 0 0
#>
#> $annotations
#> type event
#> gene 4 "ins_del" "TET2"
#> gene 5 "ins_del" "EZH2"
#> gene 7 "ins_del" "ASXL1"
#> gene 29 "missense_point_mutations" "SETBP1"
#> gene 30 "missense_point_mutations" "NRAS_Ex2_3"
#> gene 31 "missense_point_mutations" "KRAS_Ex2_3"
#> gene 32 "missense_point_mutations" "TET2"
#> gene 33 "missense_point_mutations" "EZH2"
#> gene 34 "missense_point_mutations" "CBL_Ex_8_9"
#> gene 36 "missense_point_mutations" "IDH2_R140"
#> gene 40 "missense_point_mutations" "SF3B1_Ex_12_15"
#> gene 44 "missense_point_mutations" "JARID_2_Ex1_18"
#> gene 47 "missense_point_mutations" "EED_Ex2_12"
#> gene 49 "missense_point_mutations" "CEBPA"
#> gene 50 "missense_point_mutations" "EPHB3"
#> gene 51 "missense_point_mutations" "ETNK1"
#> gene 52 "missense_point_mutations" "GATA2"
#> gene 53 "missense_point_mutations" "IRAK4"
#> gene 54 "missense_point_mutations" "MTA2"
#> gene 55 "missense_point_mutations" "CSF3R"
#> gene 56 "missense_point_mutations" "KIT"
#> gene 66 "nonsense_ins_del" "WT1"
#> gene 69 "nonsense_ins_del" "RUNX_1"
#> gene 77 "nonsense_ins_del" "CEBPA"
#> gene 88 "nonsense_point_mutations" "TET2"
#> gene 89 "nonsense_point_mutations" "EZH2"
#> gene 91 "nonsense_point_mutations" "ASXL1"
#> gene 111 "nonsense_point_mutations" "CSF3R"
#> XOR_EZH2 "Pattern" "XOR_EZH2"
#> OR_CSF3R "Pattern" "OR_CSF3R"
#>
#> $types
#> color
#> ins_del "khaki"
#> missense_point_mutations "lightgreen"
#> nonsense_ins_del "cornflowerblue"
#> nonsense_point_mutations "firebrick1"
#> Pattern "slateblue"
#>
#> $stages
#> [1] NA
#>
#> $hypotheses
#> $hypotheses$num.hypotheses
#> [1] 2
#>
#> $hypotheses$hlist
#> cause effect
#> [1,] "XOR_EZH2" "gene 4"
#> [2,] "XOR_EZH2" "gene 7"
#> [3,] "XOR_EZH2" "gene 29"
#> [4,] "XOR_EZH2" "gene 30"
#> [5,] "XOR_EZH2" "gene 31"
#> [6,] "XOR_EZH2" "gene 32"
#> [7,] "XOR_EZH2" "gene 34"
#> [8,] "XOR_EZH2" "gene 36"
#> [9,] "XOR_EZH2" "gene 40"
#> [10,] "XOR_EZH2" "gene 44"
#> [11,] "XOR_EZH2" "gene 47"
#> [12,] "XOR_EZH2" "gene 49"
#> [13,] "XOR_EZH2" "gene 50"
#> [14,] "XOR_EZH2" "gene 51"
#> [15,] "XOR_EZH2" "gene 52"
#> [16,] "XOR_EZH2" "gene 53"
#> [17,] "XOR_EZH2" "gene 54"
#> [18,] "XOR_EZH2" "gene 55"
#> [19,] "XOR_EZH2" "gene 56"
#> [20,] "XOR_EZH2" "gene 66"
#> [21,] "XOR_EZH2" "gene 69"
#> [22,] "XOR_EZH2" "gene 77"
#> [23,] "XOR_EZH2" "gene 88"
#> [24,] "XOR_EZH2" "gene 91"
#> [25,] "XOR_EZH2" "gene 111"
#> [26,] "gene 4" "XOR_EZH2"
#> [27,] "gene 7" "XOR_EZH2"
#> [28,] "gene 29" "XOR_EZH2"
#> [29,] "gene 30" "XOR_EZH2"
#> [30,] "gene 31" "XOR_EZH2"
#> [31,] "gene 32" "XOR_EZH2"
#> [32,] "gene 34" "XOR_EZH2"
#> [33,] "gene 36" "XOR_EZH2"
#> [34,] "gene 40" "XOR_EZH2"
#> [35,] "gene 44" "XOR_EZH2"
#> [36,] "gene 47" "XOR_EZH2"
#> [37,] "gene 49" "XOR_EZH2"
#> [38,] "gene 50" "XOR_EZH2"
#> [39,] "gene 51" "XOR_EZH2"
#> [40,] "gene 52" "XOR_EZH2"
#> [41,] "gene 53" "XOR_EZH2"
#> [42,] "gene 54" "XOR_EZH2"
#> [43,] "gene 55" "XOR_EZH2"
#> [44,] "gene 56" "XOR_EZH2"
#> [45,] "gene 66" "XOR_EZH2"
#> [46,] "gene 69" "XOR_EZH2"
#> [47,] "gene 77" "XOR_EZH2"
#> [48,] "gene 88" "XOR_EZH2"
#> [49,] "gene 91" "XOR_EZH2"
#> [50,] "gene 111" "XOR_EZH2"
#> [51,] "OR_CSF3R" "gene 4"
#> [52,] "OR_CSF3R" "gene 5"
#> [53,] "OR_CSF3R" "gene 7"
#> [54,] "OR_CSF3R" "gene 29"
#> [55,] "OR_CSF3R" "gene 30"
#> [56,] "OR_CSF3R" "gene 31"
#> [57,] "OR_CSF3R" "gene 32"
#> [58,] "OR_CSF3R" "gene 33"
#> [59,] "OR_CSF3R" "gene 34"
#> [60,] "OR_CSF3R" "gene 36"
#> [61,] "OR_CSF3R" "gene 40"
#> [62,] "OR_CSF3R" "gene 44"
#> [63,] "OR_CSF3R" "gene 47"
#> [64,] "OR_CSF3R" "gene 49"
#> [65,] "OR_CSF3R" "gene 50"
#> [66,] "OR_CSF3R" "gene 51"
#> [67,] "OR_CSF3R" "gene 52"
#> [68,] "OR_CSF3R" "gene 53"
#> [69,] "OR_CSF3R" "gene 54"
#> [70,] "OR_CSF3R" "gene 56"
#> [71,] "OR_CSF3R" "gene 66"
#> [72,] "OR_CSF3R" "gene 69"
#> [73,] "OR_CSF3R" "gene 77"
#> [74,] "OR_CSF3R" "gene 88"
#> [75,] "OR_CSF3R" "gene 89"
#> [76,] "OR_CSF3R" "gene 91"
#> [77,] "gene 4" "OR_CSF3R"
#> [78,] "gene 5" "OR_CSF3R"
#> [79,] "gene 7" "OR_CSF3R"
#> [80,] "gene 29" "OR_CSF3R"
#> [81,] "gene 30" "OR_CSF3R"
#> [82,] "gene 31" "OR_CSF3R"
#> [83,] "gene 32" "OR_CSF3R"
#> [84,] "gene 33" "OR_CSF3R"
#> [85,] "gene 34" "OR_CSF3R"
#> [86,] "gene 36" "OR_CSF3R"
#> [87,] "gene 40" "OR_CSF3R"
#> [88,] "gene 44" "OR_CSF3R"
#> [89,] "gene 47" "OR_CSF3R"
#> [90,] "gene 49" "OR_CSF3R"
#> [91,] "gene 50" "OR_CSF3R"
#> [92,] "gene 51" "OR_CSF3R"
#> [93,] "gene 52" "OR_CSF3R"
#> [94,] "gene 53" "OR_CSF3R"
#> [95,] "gene 54" "OR_CSF3R"
#> [96,] "gene 56" "OR_CSF3R"
#> [97,] "gene 66" "OR_CSF3R"
#> [98,] "gene 69" "OR_CSF3R"
#> [99,] "gene 77" "OR_CSF3R"
#> [100,] "gene 88" "OR_CSF3R"
#> [101,] "gene 89" "OR_CSF3R"
#> [102,] "gene 91" "OR_CSF3R"
#>
#> $hypotheses$hstructure
#> $hypotheses$hstructure$XOR_EZH2
#> gene 5 gene 33 gene 89 XOR_gene 5_gene 33_gene 89
#> gene 5 0 0 0 1
#> gene 33 0 0 0 1
#> gene 89 0 0 0 1
#> XOR_gene 5_gene 33_gene 89 0 0 0 0
#>
#> $hypotheses$hstructure$OR_CSF3R
#> gene 55 gene 111 OR_gene 55_gene 111
#> gene 55 0 0 1
#> gene 111 0 0 1
#> OR_gene 55_gene 111 0 0 0
#>
#>
#> $hypotheses$patterns
#> $hypotheses$patterns$XOR_EZH2
#> [1] "gene 5" "gene 33" "gene 89"
#>
#> $hypotheses$patterns$OR_CSF3R
#> [1] "gene 55" "gene 111"
#>
#>
#> $hypotheses$atoms
#> $hypotheses$atoms$`gene 4`
#> NULL
#>
#> $hypotheses$atoms$`gene 5`
#> [1] "XOR_EZH2"
#>
#> $hypotheses$atoms$`gene 7`
#> NULL
#>
#> $hypotheses$atoms$`gene 29`
#> NULL
#>
#> $hypotheses$atoms$`gene 30`
#> NULL
#>
#> $hypotheses$atoms$`gene 31`
#> NULL
#>
#> $hypotheses$atoms$`gene 32`
#> NULL
#>
#> $hypotheses$atoms$`gene 33`
#> [1] "XOR_EZH2"
#>
#> $hypotheses$atoms$`gene 34`
#> NULL
#>
#> $hypotheses$atoms$`gene 36`
#> NULL
#>
#> $hypotheses$atoms$`gene 40`
#> NULL
#>
#> $hypotheses$atoms$`gene 44`
#> NULL
#>
#> $hypotheses$atoms$`gene 47`
#> NULL
#>
#> $hypotheses$atoms$`gene 49`
#> NULL
#>
#> $hypotheses$atoms$`gene 50`
#> NULL
#>
#> $hypotheses$atoms$`gene 51`
#> NULL
#>
#> $hypotheses$atoms$`gene 52`
#> NULL
#>
#> $hypotheses$atoms$`gene 53`
#> NULL
#>
#> $hypotheses$atoms$`gene 54`
#> NULL
#>
#> $hypotheses$atoms$`gene 55`
#> [1] "OR_CSF3R"
#>
#> $hypotheses$atoms$`gene 56`
#> NULL
#>
#> $hypotheses$atoms$`gene 66`
#> NULL
#>
#> $hypotheses$atoms$`gene 69`
#> NULL
#>
#> $hypotheses$atoms$`gene 77`
#> NULL
#>
#> $hypotheses$atoms$`gene 88`
#> NULL
#>
#> $hypotheses$atoms$`gene 89`
#> [1] "XOR_EZH2"
#>
#> $hypotheses$atoms$`gene 91`
#> NULL
#>
#> $hypotheses$atoms$`gene 111`
#> [1] "OR_CSF3R"
#>
#>
#> $hypotheses$pvalues
#> $hypotheses$pvalues$XOR_EZH2
#>
#> 1 1 1
#>
#> $hypotheses$pvalues$OR_CSF3R
#>
#> 0.7226721
#>
#>
#>
#> $adj.matrix.prima.facie
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31 gene 32 gene 33 gene 34
#> gene 4 0 0 0 0 0 0 0 0 1
#> gene 5 0 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 1 1 0 1
#> gene 29 0 0 0 0 1 0 0 0 1
#> gene 30 0 0 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0 0
#> gene 32 0 1 0 0 0 0 0 0 0
#> gene 33 1 0 0 0 1 0 0 0 1
#> gene 34 0 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 1 0 0
#> gene 56 0 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 0 0 0 0 0
#> gene 88 0 0 0 0 1 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0 1
#> gene 111 0 0 0 0 0 0 0 0 0
#> XOR_EZH2 1 0 0 0 1 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 1 0 0
#> gene 36 gene 40 gene 44 gene 47 gene 49 gene 50 gene 51 gene 52
#> gene 4 0 0 0 0 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 1 0 0 1 0 0
#> gene 30 0 0 1 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 0 0
#> gene 33 0 0 0 0 1 0 1 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 1 0 0 0 0
#> gene 88 0 0 1 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 1 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 1 0 1 0
#> OR_CSF3R 0 0 0 0 0 0 0 0
#> gene 53 gene 54 gene 55 gene 56 gene 66 gene 69 gene 77 gene 88
#> gene 4 0 0 0 1 0 1 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 1 0 0 0 0 1
#> gene 30 1 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 1 0 1 0
#> gene 33 1 0 0 1 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 1 0 1 0
#> gene 56 0 0 0 0 0 1 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 1 0 0 0
#> gene 88 0 0 1 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 1 0 0 1 0 0 0 0
#> OR_CSF3R 0 0 0 0 1 0 1 0
#> gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0 0 0 0 0
#> gene 5 0 0 0 0 0
#> gene 7 0 0 0 0 0
#> gene 29 1 1 1 0 1
#> gene 30 0 0 0 0 0
#> gene 31 0 0 0 0 0
#> gene 32 0 0 0 0 0
#> gene 33 0 0 0 0 0
#> gene 34 0 0 0 0 0
#> gene 36 0 0 0 0 0
#> gene 40 0 0 0 0 0
#> gene 44 0 0 0 0 0
#> gene 47 0 0 0 0 0
#> gene 49 0 0 0 0 0
#> gene 50 0 0 0 0 0
#> gene 51 0 0 0 0 0
#> gene 52 0 0 0 0 0
#> gene 53 0 0 0 0 0
#> gene 54 0 0 0 0 0
#> gene 55 0 0 1 0 0
#> gene 56 0 0 0 0 0
#> gene 66 0 0 0 0 0
#> gene 69 0 0 0 0 0
#> gene 77 0 0 0 0 0
#> gene 88 0 0 0 0 0
#> gene 89 0 0 0 0 0
#> gene 91 0 0 0 0 0
#> gene 111 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0
#>
#> $confidence
#> confidence
#> temporal priority numeric,900
#> probability raising numeric,900
#> hypergeometric test numeric,900
#>
#> $model
#> $model$capri_bic
#> $model$capri_bic$probabilities
#> $model$capri_bic$probabilities$probabilities.observed
#> $model$capri_bic$probabilities$probabilities.observed$marginal.probs
#> marginal probability
#> gene 4 0.07416667
#> gene 5 0.02946970
#> gene 7 0.16984848
#> gene 29 0.35257576
#> gene 30 0.07954545
#> gene 31 0.02962121
#> gene 32 0.07318182
#> gene 33 0.14984848
#> gene 34 0.07045455
#> gene 36 0.03295455
#> gene 40 0.02727273
#> gene 44 0.02916667
#> gene 47 0.02984848
#> gene 49 0.02750000
#> gene 50 0.03166667
#> gene 51 0.02954545
#> gene 52 0.03068182
#> gene 53 0.03166667
#> gene 54 0.03060606
#> gene 55 0.10598485
#> gene 56 0.05242424
#> gene 66 0.02886364
#> gene 69 0.02916667
#> gene 77 0.05113636
#> gene 88 0.12439394
#> gene 89 0.02810606
#> gene 91 0.10007576
#> gene 111 0.07856061
#> XOR_EZH2 0.19787879
#> OR_CSF3R 0.15500000
#>
#> $model$capri_bic$probabilities$probabilities.observed$joint.probs
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31
#> gene 4 0.07348485 0.00000000 0.02272727 0.00000000 0.00000000 0.000
#> gene 5 0.00000000 0.02484848 0.02484848 0.00000000 0.00000000 0.000
#> gene 7 0.02272727 0.02484848 0.16984848 0.02439394 0.00000000 0.025
#> gene 29 0.00000000 0.00000000 0.02439394 0.35257576 0.05090909 0.000
#> gene 30 0.00000000 0.00000000 0.00000000 0.05090909 0.07909091 0.000
#> gene 31 0.00000000 0.00000000 0.02500000 0.00000000 0.00000000 0.025
#> gene 32 0.00000000 0.02484848 0.04863636 0.00000000 0.00000000 0.000
#> gene 33 0.04939394 0.00000000 0.04696970 0.00000000 0.02818182 0.000
#> gene 34 0.02272727 0.00000000 0.02272727 0.04727273 0.00000000 0.000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 44 0.00000000 0.00000000 0.00000000 0.02378788 0.02378788 0.000
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 49 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 50 0.00000000 0.00000000 0.00000000 0.02742424 0.00000000 0.000
#> gene 51 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182 0.000
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 55 0.00000000 0.00000000 0.00000000 0.05590909 0.00000000 0.000
#> gene 56 0.05075758 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 66 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 69 0.02409091 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 77 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 88 0.00000000 0.00000000 0.02424242 0.05075758 0.02378788 0.000
#> gene 89 0.00000000 0.00000000 0.00000000 0.02318182 0.00000000 0.000
#> gene 91 0.00000000 0.00000000 0.00000000 0.10000000 0.00000000 0.000
#> gene 111 0.00000000 0.00000000 0.00000000 0.05287879 0.00000000 0.000
#> XOR_EZH2 0.04939394 0.02484848 0.07181818 0.02318182 0.02818182 0.000
#> OR_CSF3R 0.00000000 0.00000000 0.00000000 0.07984848 0.00000000 0.000
#> gene 32 gene 33 gene 34 gene 36 gene 40 gene 44
#> gene 4 0.00000000 0.04939394 0.02272727 0.00000000 0.00000000 0.00000000
#> gene 5 0.02484848 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 7 0.04863636 0.04696970 0.02272727 0.00000000 0.00000000 0.00000000
#> gene 29 0.00000000 0.00000000 0.04727273 0.00000000 0.00000000 0.02378788
#> gene 30 0.00000000 0.02818182 0.00000000 0.00000000 0.00000000 0.02378788
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.07257576 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 33 0.00000000 0.14984848 0.02272727 0.00000000 0.00000000 0.00000000
#> gene 34 0.00000000 0.02272727 0.07000000 0.00000000 0.00000000 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.02878788 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.02212121 0.00000000
#> gene 44 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02378788
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 49 0.00000000 0.02257576 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 50 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.02545455 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 53 0.00000000 0.02818182 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 56 0.00000000 0.02666667 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 66 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 69 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 77 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 88 0.00000000 0.02424242 0.00000000 0.00000000 0.00000000 0.02378788
#> gene 89 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 91 0.00000000 0.00000000 0.04727273 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> XOR_EZH2 0.02484848 0.14984848 0.02272727 0.00000000 0.00000000 0.00000000
#> OR_CSF3R 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 gene 49 gene 50 gene 51 gene 52 gene 53
#> gene 4 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 5 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 7 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 29 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 30 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 33 0.00000000 0.02257576 0.00000000 0.02545455 0.00000000 0.02818182
#> gene 34 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 44 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 0.02590909 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 49 0.00000000 0.02257576 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 50 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.00000000 0.00000000 0.02545455 0.00000000 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.02666667 0.00000000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 56 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 66 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 69 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 77 0.02590909 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 88 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 89 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 91 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> XOR_EZH2 0.00000000 0.02257576 0.00000000 0.02545455 0.00000000 0.02818182
#> OR_CSF3R 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 54 gene 55 gene 56 gene 66 gene 69 gene 77
#> gene 4 0.00000000 0.00000000 0.05075758 0.00000000 0.02409091 0.00000000
#> gene 5 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 7 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 29 0.00000000 0.05590909 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 30 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.00000000 0.02393939 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 33 0.00000000 0.00000000 0.02666667 0.00000000 0.00000000 0.00000000
#> gene 34 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 44 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02590909
#> gene 49 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 50 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 54 0.02575758 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.00000000 0.10590909 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 56 0.00000000 0.00000000 0.05075758 0.00000000 0.02409091 0.00000000
#> gene 66 0.00000000 0.02393939 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 69 0.00000000 0.00000000 0.02409091 0.00000000 0.02409091 0.00000000
#> gene 77 0.00000000 0.02393939 0.00000000 0.02393939 0.00000000 0.04984848
#> gene 88 0.00000000 0.02696970 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 89 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 91 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.02893939 0.00000000 0.00000000 0.00000000 0.00000000
#> XOR_EZH2 0.00000000 0.00000000 0.02666667 0.00000000 0.00000000 0.00000000
#> OR_CSF3R 0.00000000 0.10590909 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 88 gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0.00000000 0.00000000 0.00000000 0.00000000 0.04939394 0.00000000
#> gene 5 0.00000000 0.00000000 0.00000000 0.00000000 0.02484848 0.00000000
#> gene 7 0.02424242 0.00000000 0.00000000 0.00000000 0.07181818 0.00000000
#> gene 29 0.05075758 0.02318182 0.10000000 0.05287879 0.02318182 0.07984848
#> gene 30 0.02378788 0.00000000 0.00000000 0.00000000 0.02818182 0.00000000
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.00000000 0.00000000 0.00000000 0.00000000 0.02484848 0.02393939
#> gene 33 0.02424242 0.00000000 0.00000000 0.00000000 0.14984848 0.00000000
#> gene 34 0.00000000 0.00000000 0.04727273 0.00000000 0.02272727 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 44 0.02378788 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 49 0.00000000 0.00000000 0.00000000 0.00000000 0.02257576 0.00000000
#> gene 50 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.00000000 0.00000000 0.00000000 0.02545455 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182 0.00000000
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.02696970 0.00000000 0.00000000 0.02893939 0.00000000 0.10590909
#> gene 56 0.00000000 0.00000000 0.00000000 0.00000000 0.02666667 0.00000000
#> gene 66 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02393939
#> gene 69 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 77 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02393939
#> gene 88 0.12439394 0.00000000 0.00000000 0.00000000 0.02424242 0.02696970
#> gene 89 0.00000000 0.02318182 0.00000000 0.00000000 0.02318182 0.00000000
#> gene 91 0.00000000 0.00000000 0.10000000 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.00000000 0.00000000 0.07803030 0.00000000 0.07803030
#> XOR_EZH2 0.02424242 0.02318182 0.00000000 0.00000000 0.19787879 0.00000000
#> OR_CSF3R 0.02696970 0.00000000 0.00000000 0.07803030 0.00000000 0.15500000
#>
#> $model$capri_bic$probabilities$probabilities.observed$conditional.probs
#> conditional probability
#> gene 4 0.3296259
#> gene 5 0.3395445
#> gene 7 1
#> gene 29 1
#> gene 30 1
#> gene 31 1
#> gene 32 0.2863515
#> gene 33 1
#> gene 34 0.4723694
#> gene 36 1
#> gene 40 1
#> gene 44 0.2990476
#> gene 47 0.5066667
#> gene 49 0.1506572
#> gene 50 0.2740348
#> gene 51 0.1698686
#> gene 52 1
#> gene 53 0.3542857
#> gene 54 1
#> gene 55 1
#> gene 56 0.6843718
#> gene 66 0.4681481
#> gene 69 0.4595376
#> gene 77 1
#> gene 88 1
#> gene 89 1
#> gene 91 0.283627
#> gene 111 1
#> XOR_EZH2 1
#> OR_CSF3R 1
#>
#>
#> $model$capri_bic$probabilities$probabilities.fit
#> $model$capri_bic$probabilities$probabilities.fit$estimated.marginal.probs
#> [1] NA
#>
#> $model$capri_bic$probabilities$probabilities.fit$estimated.joint.probs
#> [1] NA
#>
#> $model$capri_bic$probabilities$probabilities.fit$estimated.conditional.probs
#> [1] NA
#>
#>
#>
#> $model$capri_bic$parents.pos
#> parents
#> gene 4 8
#> gene 5 7
#> gene 7 -1
#> gene 29 -1
#> gene 30 -1
#> gene 31 -1
#> gene 32 3
#> gene 33 -1
#> gene 34 27
#> gene 36 -1
#> gene 40 -1
#> gene 44 5
#> gene 47 24
#> gene 49 8
#> gene 50 27
#> gene 51 8
#> gene 52 -1
#> gene 53 5
#> gene 54 -1
#> gene 55 -1
#> gene 56 1
#> gene 66 24
#> gene 69 21
#> gene 77 -1
#> gene 88 -1
#> gene 89 -1
#> gene 91 4
#> gene 111 -1
#> XOR_EZH2 -1
#> OR_CSF3R -1
#>
#> $model$capri_bic$error.rates
#> $model$capri_bic$error.rates$error.fp
#> [1] NA
#>
#> $model$capri_bic$error.rates$error.fn
#> [1] NA
#>
#>
#> $model$capri_bic$adj.matrix
#> $model$capri_bic$adj.matrix$adj.matrix.pf
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31 gene 32 gene 33 gene 34
#> gene 4 0 0 0 0 0 0 0 0 1
#> gene 5 0 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 1 1 0 1
#> gene 29 0 0 0 0 1 0 0 0 1
#> gene 30 0 0 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0 0
#> gene 32 0 1 0 0 0 0 0 0 0
#> gene 33 1 0 0 0 1 0 0 0 1
#> gene 34 0 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 1 0 0
#> gene 56 0 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 0 0 0 0 0
#> gene 88 0 0 0 0 1 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0 1
#> gene 111 0 0 0 0 0 0 0 0 0
#> XOR_EZH2 1 0 0 0 1 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 1 0 0
#> gene 36 gene 40 gene 44 gene 47 gene 49 gene 50 gene 51 gene 52
#> gene 4 0 0 0 0 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 1 0 0 1 0 0
#> gene 30 0 0 1 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 0 0
#> gene 33 0 0 0 0 1 0 1 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 1 0 0 0 0
#> gene 88 0 0 1 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 1 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 1 0 1 0
#> OR_CSF3R 0 0 0 0 0 0 0 0
#> gene 53 gene 54 gene 55 gene 56 gene 66 gene 69 gene 77 gene 88
#> gene 4 0 0 0 1 0 1 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 1 0 0 0 0 1
#> gene 30 1 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 1 0 1 0
#> gene 33 1 0 0 1 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 1 0 1 0
#> gene 56 0 0 0 0 0 1 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 1 0 0 0
#> gene 88 0 0 1 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 1 0 0 1 0 0 0 0
#> OR_CSF3R 0 0 0 0 1 0 1 0
#> gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0 0 0 0 0
#> gene 5 0 0 0 0 0
#> gene 7 0 0 0 0 0
#> gene 29 1 1 1 0 1
#> gene 30 0 0 0 0 0
#> gene 31 0 0 0 0 0
#> gene 32 0 0 0 0 0
#> gene 33 0 0 0 0 0
#> gene 34 0 0 0 0 0
#> gene 36 0 0 0 0 0
#> gene 40 0 0 0 0 0
#> gene 44 0 0 0 0 0
#> gene 47 0 0 0 0 0
#> gene 49 0 0 0 0 0
#> gene 50 0 0 0 0 0
#> gene 51 0 0 0 0 0
#> gene 52 0 0 0 0 0
#> gene 53 0 0 0 0 0
#> gene 54 0 0 0 0 0
#> gene 55 0 0 1 0 0
#> gene 56 0 0 0 0 0
#> gene 66 0 0 0 0 0
#> gene 69 0 0 0 0 0
#> gene 77 0 0 0 0 0
#> gene 88 0 0 0 0 0
#> gene 89 0 0 0 0 0
#> gene 91 0 0 0 0 0
#> gene 111 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0
#>
#> $model$capri_bic$adj.matrix$adj.matrix.fit
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31 gene 32 gene 33 gene 34
#> gene 4 0 0 0 0 0 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 1 0 0
#> gene 29 0 0 0 0 0 0 0 0 0
#> gene 30 0 0 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0 0
#> gene 32 0 1 0 0 0 0 0 0 0
#> gene 33 1 0 0 0 0 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 0 0 0 0 0
#> gene 88 0 0 0 0 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0 1
#> gene 111 0 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 0 0 0
#> gene 36 gene 40 gene 44 gene 47 gene 49 gene 50 gene 51 gene 52
#> gene 4 0 0 0 0 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 0 0 0 0 0 0
#> gene 30 0 0 1 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 0 0
#> gene 33 0 0 0 0 1 0 1 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 1 0 0 0 0
#> gene 88 0 0 0 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 1 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 0 0
#> gene 53 gene 54 gene 55 gene 56 gene 66 gene 69 gene 77 gene 88
#> gene 4 0 0 0 1 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 0 0 0 0 0 0
#> gene 30 1 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 0 0
#> gene 33 0 0 0 0 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 1 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 1 0 0 0
#> gene 88 0 0 0 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 0 0
#> gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0 0 0 0 0
#> gene 5 0 0 0 0 0
#> gene 7 0 0 0 0 0
#> gene 29 0 1 0 0 0
#> gene 30 0 0 0 0 0
#> gene 31 0 0 0 0 0
#> gene 32 0 0 0 0 0
#> gene 33 0 0 0 0 0
#> gene 34 0 0 0 0 0
#> gene 36 0 0 0 0 0
#> gene 40 0 0 0 0 0
#> gene 44 0 0 0 0 0
#> gene 47 0 0 0 0 0
#> gene 49 0 0 0 0 0
#> gene 50 0 0 0 0 0
#> gene 51 0 0 0 0 0
#> gene 52 0 0 0 0 0
#> gene 53 0 0 0 0 0
#> gene 54 0 0 0 0 0
#> gene 55 0 0 0 0 0
#> gene 56 0 0 0 0 0
#> gene 66 0 0 0 0 0
#> gene 69 0 0 0 0 0
#> gene 77 0 0 0 0 0
#> gene 88 0 0 0 0 0
#> gene 89 0 0 0 0 0
#> gene 91 0 0 0 0 0
#> gene 111 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0
#>
#>
#> $model$capri_bic$score
#> [1] -316.9889
#>
#> $model$capri_bic$logLik
#> [1] -235.8336
#>
#>
#> $model$capri_aic
#> $model$capri_aic$probabilities
#> $model$capri_aic$probabilities$probabilities.observed
#> $model$capri_aic$probabilities$probabilities.observed$marginal.probs
#> marginal probability
#> gene 4 0.07416667
#> gene 5 0.02946970
#> gene 7 0.16984848
#> gene 29 0.35257576
#> gene 30 0.07954545
#> gene 31 0.02962121
#> gene 32 0.07318182
#> gene 33 0.14984848
#> gene 34 0.07045455
#> gene 36 0.03295455
#> gene 40 0.02727273
#> gene 44 0.02916667
#> gene 47 0.02984848
#> gene 49 0.02750000
#> gene 50 0.03166667
#> gene 51 0.02954545
#> gene 52 0.03068182
#> gene 53 0.03166667
#> gene 54 0.03060606
#> gene 55 0.10598485
#> gene 56 0.05242424
#> gene 66 0.02886364
#> gene 69 0.02916667
#> gene 77 0.05113636
#> gene 88 0.12439394
#> gene 89 0.02810606
#> gene 91 0.10007576
#> gene 111 0.07856061
#> XOR_EZH2 0.19787879
#> OR_CSF3R 0.15500000
#>
#> $model$capri_aic$probabilities$probabilities.observed$joint.probs
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31
#> gene 4 0.07348485 0.00000000 0.02272727 0.00000000 0.00000000 0.000
#> gene 5 0.00000000 0.02484848 0.02484848 0.00000000 0.00000000 0.000
#> gene 7 0.02272727 0.02484848 0.16984848 0.02439394 0.00000000 0.025
#> gene 29 0.00000000 0.00000000 0.02439394 0.35257576 0.05090909 0.000
#> gene 30 0.00000000 0.00000000 0.00000000 0.05090909 0.07909091 0.000
#> gene 31 0.00000000 0.00000000 0.02500000 0.00000000 0.00000000 0.025
#> gene 32 0.00000000 0.02484848 0.04863636 0.00000000 0.00000000 0.000
#> gene 33 0.04939394 0.00000000 0.04696970 0.00000000 0.02818182 0.000
#> gene 34 0.02272727 0.00000000 0.02272727 0.04727273 0.00000000 0.000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 44 0.00000000 0.00000000 0.00000000 0.02378788 0.02378788 0.000
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 49 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 50 0.00000000 0.00000000 0.00000000 0.02742424 0.00000000 0.000
#> gene 51 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182 0.000
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 55 0.00000000 0.00000000 0.00000000 0.05590909 0.00000000 0.000
#> gene 56 0.05075758 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 66 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 69 0.02409091 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 77 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.000
#> gene 88 0.00000000 0.00000000 0.02424242 0.05075758 0.02378788 0.000
#> gene 89 0.00000000 0.00000000 0.00000000 0.02318182 0.00000000 0.000
#> gene 91 0.00000000 0.00000000 0.00000000 0.10000000 0.00000000 0.000
#> gene 111 0.00000000 0.00000000 0.00000000 0.05287879 0.00000000 0.000
#> XOR_EZH2 0.04939394 0.02484848 0.07181818 0.02318182 0.02818182 0.000
#> OR_CSF3R 0.00000000 0.00000000 0.00000000 0.07984848 0.00000000 0.000
#> gene 32 gene 33 gene 34 gene 36 gene 40 gene 44
#> gene 4 0.00000000 0.04939394 0.02272727 0.00000000 0.00000000 0.00000000
#> gene 5 0.02484848 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 7 0.04863636 0.04696970 0.02272727 0.00000000 0.00000000 0.00000000
#> gene 29 0.00000000 0.00000000 0.04727273 0.00000000 0.00000000 0.02378788
#> gene 30 0.00000000 0.02818182 0.00000000 0.00000000 0.00000000 0.02378788
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.07257576 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 33 0.00000000 0.14984848 0.02272727 0.00000000 0.00000000 0.00000000
#> gene 34 0.00000000 0.02272727 0.07000000 0.00000000 0.00000000 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.02878788 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.02212121 0.00000000
#> gene 44 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02378788
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 49 0.00000000 0.02257576 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 50 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.02545455 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 53 0.00000000 0.02818182 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 56 0.00000000 0.02666667 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 66 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 69 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 77 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 88 0.00000000 0.02424242 0.00000000 0.00000000 0.00000000 0.02378788
#> gene 89 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 91 0.00000000 0.00000000 0.04727273 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> XOR_EZH2 0.02484848 0.14984848 0.02272727 0.00000000 0.00000000 0.00000000
#> OR_CSF3R 0.02393939 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 gene 49 gene 50 gene 51 gene 52 gene 53
#> gene 4 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 5 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 7 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 29 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 30 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 33 0.00000000 0.02257576 0.00000000 0.02545455 0.00000000 0.02818182
#> gene 34 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 44 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 0.02590909 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 49 0.00000000 0.02257576 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 50 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.00000000 0.00000000 0.02545455 0.00000000 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.02666667 0.00000000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 56 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 66 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 69 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 77 0.02590909 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 88 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 89 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 91 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> XOR_EZH2 0.00000000 0.02257576 0.00000000 0.02545455 0.00000000 0.02818182
#> OR_CSF3R 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 54 gene 55 gene 56 gene 66 gene 69 gene 77
#> gene 4 0.00000000 0.00000000 0.05075758 0.00000000 0.02409091 0.00000000
#> gene 5 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 7 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 29 0.00000000 0.05590909 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 30 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.00000000 0.02393939 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 33 0.00000000 0.00000000 0.02666667 0.00000000 0.00000000 0.00000000
#> gene 34 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 44 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02590909
#> gene 49 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 50 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 54 0.02575758 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.00000000 0.10590909 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 56 0.00000000 0.00000000 0.05075758 0.00000000 0.02409091 0.00000000
#> gene 66 0.00000000 0.02393939 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 69 0.00000000 0.00000000 0.02409091 0.00000000 0.02409091 0.00000000
#> gene 77 0.00000000 0.02393939 0.00000000 0.02393939 0.00000000 0.04984848
#> gene 88 0.00000000 0.02696970 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 89 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 91 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.02893939 0.00000000 0.00000000 0.00000000 0.00000000
#> XOR_EZH2 0.00000000 0.00000000 0.02666667 0.00000000 0.00000000 0.00000000
#> OR_CSF3R 0.00000000 0.10590909 0.00000000 0.02393939 0.00000000 0.02393939
#> gene 88 gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0.00000000 0.00000000 0.00000000 0.00000000 0.04939394 0.00000000
#> gene 5 0.00000000 0.00000000 0.00000000 0.00000000 0.02484848 0.00000000
#> gene 7 0.02424242 0.00000000 0.00000000 0.00000000 0.07181818 0.00000000
#> gene 29 0.05075758 0.02318182 0.10000000 0.05287879 0.02318182 0.07984848
#> gene 30 0.02378788 0.00000000 0.00000000 0.00000000 0.02818182 0.00000000
#> gene 31 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 32 0.00000000 0.00000000 0.00000000 0.00000000 0.02484848 0.02393939
#> gene 33 0.02424242 0.00000000 0.00000000 0.00000000 0.14984848 0.00000000
#> gene 34 0.00000000 0.00000000 0.04727273 0.00000000 0.02272727 0.00000000
#> gene 36 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 40 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 44 0.02378788 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 47 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 49 0.00000000 0.00000000 0.00000000 0.00000000 0.02257576 0.00000000
#> gene 50 0.00000000 0.00000000 0.02742424 0.00000000 0.00000000 0.00000000
#> gene 51 0.00000000 0.00000000 0.00000000 0.00000000 0.02545455 0.00000000
#> gene 52 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 53 0.00000000 0.00000000 0.00000000 0.00000000 0.02818182 0.00000000
#> gene 54 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 55 0.02696970 0.00000000 0.00000000 0.02893939 0.00000000 0.10590909
#> gene 56 0.00000000 0.00000000 0.00000000 0.00000000 0.02666667 0.00000000
#> gene 66 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02393939
#> gene 69 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000
#> gene 77 0.00000000 0.00000000 0.00000000 0.00000000 0.00000000 0.02393939
#> gene 88 0.12439394 0.00000000 0.00000000 0.00000000 0.02424242 0.02696970
#> gene 89 0.00000000 0.02318182 0.00000000 0.00000000 0.02318182 0.00000000
#> gene 91 0.00000000 0.00000000 0.10000000 0.00000000 0.00000000 0.00000000
#> gene 111 0.00000000 0.00000000 0.00000000 0.07803030 0.00000000 0.07803030
#> XOR_EZH2 0.02424242 0.02318182 0.00000000 0.00000000 0.19787879 0.00000000
#> OR_CSF3R 0.02696970 0.00000000 0.00000000 0.07803030 0.00000000 0.15500000
#>
#> $model$capri_aic$probabilities$probabilities.observed$conditional.probs
#> conditional probability
#> gene 4 0.3296259
#> gene 5 0.3395445
#> gene 7 1
#> gene 29 1
#> gene 30 1
#> gene 31 0.14719
#> gene 32 numeric,2
#> gene 33 1
#> gene 34 numeric,2
#> gene 36 1
#> gene 40 1
#> gene 44 0.2990476
#> gene 47 0.5066667
#> gene 49 0.1506572
#> gene 50 0.2740348
#> gene 51 0.1698686
#> gene 52 1
#> gene 53 0.3542857
#> gene 54 1
#> gene 55 1
#> gene 56 0.6843718
#> gene 66 0.4681481
#> gene 69 0.4595376
#> gene 77 numeric,2
#> gene 88 1
#> gene 89 0.06574989
#> gene 91 0.283627
#> gene 111 1
#> XOR_EZH2 1
#> OR_CSF3R 1
#>
#>
#> $model$capri_aic$probabilities$probabilities.fit
#> $model$capri_aic$probabilities$probabilities.fit$estimated.marginal.probs
#> [1] NA
#>
#> $model$capri_aic$probabilities$probabilities.fit$estimated.joint.probs
#> [1] NA
#>
#> $model$capri_aic$probabilities$probabilities.fit$estimated.conditional.probs
#> [1] NA
#>
#>
#>
#> $model$capri_aic$parents.pos
#> parents
#> gene 4 8
#> gene 5 7
#> gene 7 -1
#> gene 29 -1
#> gene 30 -1
#> gene 31 3
#> gene 32 integer,2
#> gene 33 -1
#> gene 34 integer,2
#> gene 36 -1
#> gene 40 -1
#> gene 44 5
#> gene 47 24
#> gene 49 8
#> gene 50 27
#> gene 51 8
#> gene 52 -1
#> gene 53 5
#> gene 54 -1
#> gene 55 -1
#> gene 56 1
#> gene 66 24
#> gene 69 21
#> gene 77 integer,2
#> gene 88 -1
#> gene 89 4
#> gene 91 4
#> gene 111 -1
#> XOR_EZH2 -1
#> OR_CSF3R -1
#>
#> $model$capri_aic$error.rates
#> $model$capri_aic$error.rates$error.fp
#> [1] NA
#>
#> $model$capri_aic$error.rates$error.fn
#> [1] NA
#>
#>
#> $model$capri_aic$adj.matrix
#> $model$capri_aic$adj.matrix$adj.matrix.pf
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31 gene 32 gene 33 gene 34
#> gene 4 0 0 0 0 0 0 0 0 1
#> gene 5 0 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 1 1 0 1
#> gene 29 0 0 0 0 1 0 0 0 1
#> gene 30 0 0 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0 0
#> gene 32 0 1 0 0 0 0 0 0 0
#> gene 33 1 0 0 0 1 0 0 0 1
#> gene 34 0 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 1 0 0
#> gene 56 0 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 0 0 0 0 0
#> gene 88 0 0 0 0 1 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0 1
#> gene 111 0 0 0 0 0 0 0 0 0
#> XOR_EZH2 1 0 0 0 1 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 1 0 0
#> gene 36 gene 40 gene 44 gene 47 gene 49 gene 50 gene 51 gene 52
#> gene 4 0 0 0 0 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 1 0 0 1 0 0
#> gene 30 0 0 1 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 0 0
#> gene 33 0 0 0 0 1 0 1 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 1 0 0 0 0
#> gene 88 0 0 1 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 1 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 1 0 1 0
#> OR_CSF3R 0 0 0 0 0 0 0 0
#> gene 53 gene 54 gene 55 gene 56 gene 66 gene 69 gene 77 gene 88
#> gene 4 0 0 0 1 0 1 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 1 0 0 0 0 1
#> gene 30 1 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 1 0 1 0
#> gene 33 1 0 0 1 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 1 0 1 0
#> gene 56 0 0 0 0 0 1 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 1 0 0 0
#> gene 88 0 0 1 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 1 0 0 1 0 0 0 0
#> OR_CSF3R 0 0 0 0 1 0 1 0
#> gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0 0 0 0 0
#> gene 5 0 0 0 0 0
#> gene 7 0 0 0 0 0
#> gene 29 1 1 1 0 1
#> gene 30 0 0 0 0 0
#> gene 31 0 0 0 0 0
#> gene 32 0 0 0 0 0
#> gene 33 0 0 0 0 0
#> gene 34 0 0 0 0 0
#> gene 36 0 0 0 0 0
#> gene 40 0 0 0 0 0
#> gene 44 0 0 0 0 0
#> gene 47 0 0 0 0 0
#> gene 49 0 0 0 0 0
#> gene 50 0 0 0 0 0
#> gene 51 0 0 0 0 0
#> gene 52 0 0 0 0 0
#> gene 53 0 0 0 0 0
#> gene 54 0 0 0 0 0
#> gene 55 0 0 1 0 0
#> gene 56 0 0 0 0 0
#> gene 66 0 0 0 0 0
#> gene 69 0 0 0 0 0
#> gene 77 0 0 0 0 0
#> gene 88 0 0 0 0 0
#> gene 89 0 0 0 0 0
#> gene 91 0 0 0 0 0
#> gene 111 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0
#>
#> $model$capri_aic$adj.matrix$adj.matrix.fit
#> gene 4 gene 5 gene 7 gene 29 gene 30 gene 31 gene 32 gene 33 gene 34
#> gene 4 0 0 0 0 0 0 0 0 1
#> gene 5 0 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 1 1 0 0
#> gene 29 0 0 0 0 0 0 0 0 0
#> gene 30 0 0 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0 0
#> gene 32 0 1 0 0 0 0 0 0 0
#> gene 33 1 0 0 0 0 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 1 0 0
#> gene 56 0 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 0 0 0 0 0
#> gene 88 0 0 0 0 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0 1
#> gene 111 0 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 0 0 0
#> gene 36 gene 40 gene 44 gene 47 gene 49 gene 50 gene 51 gene 52
#> gene 4 0 0 0 0 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 0 0 0 0 0 0
#> gene 30 0 0 1 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 0 0
#> gene 33 0 0 0 0 1 0 1 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 0 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 1 0 0 0 0
#> gene 88 0 0 0 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 1 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 0 0
#> gene 53 gene 54 gene 55 gene 56 gene 66 gene 69 gene 77 gene 88
#> gene 4 0 0 0 1 0 0 0 0
#> gene 5 0 0 0 0 0 0 0 0
#> gene 7 0 0 0 0 0 0 0 0
#> gene 29 0 0 0 0 0 0 0 0
#> gene 30 1 0 0 0 0 0 0 0
#> gene 31 0 0 0 0 0 0 0 0
#> gene 32 0 0 0 0 0 0 1 0
#> gene 33 0 0 0 0 0 0 0 0
#> gene 34 0 0 0 0 0 0 0 0
#> gene 36 0 0 0 0 0 0 0 0
#> gene 40 0 0 0 0 0 0 0 0
#> gene 44 0 0 0 0 0 0 0 0
#> gene 47 0 0 0 0 0 0 0 0
#> gene 49 0 0 0 0 0 0 0 0
#> gene 50 0 0 0 0 0 0 0 0
#> gene 51 0 0 0 0 0 0 0 0
#> gene 52 0 0 0 0 0 0 0 0
#> gene 53 0 0 0 0 0 0 0 0
#> gene 54 0 0 0 0 0 0 0 0
#> gene 55 0 0 0 0 0 0 0 0
#> gene 56 0 0 0 0 0 1 0 0
#> gene 66 0 0 0 0 0 0 0 0
#> gene 69 0 0 0 0 0 0 0 0
#> gene 77 0 0 0 0 1 0 0 0
#> gene 88 0 0 0 0 0 0 0 0
#> gene 89 0 0 0 0 0 0 0 0
#> gene 91 0 0 0 0 0 0 0 0
#> gene 111 0 0 0 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0 0 1 0
#> gene 89 gene 91 gene 111 XOR_EZH2 OR_CSF3R
#> gene 4 0 0 0 0 0
#> gene 5 0 0 0 0 0
#> gene 7 0 0 0 0 0
#> gene 29 1 1 0 0 0
#> gene 30 0 0 0 0 0
#> gene 31 0 0 0 0 0
#> gene 32 0 0 0 0 0
#> gene 33 0 0 0 0 0
#> gene 34 0 0 0 0 0
#> gene 36 0 0 0 0 0
#> gene 40 0 0 0 0 0
#> gene 44 0 0 0 0 0
#> gene 47 0 0 0 0 0
#> gene 49 0 0 0 0 0
#> gene 50 0 0 0 0 0
#> gene 51 0 0 0 0 0
#> gene 52 0 0 0 0 0
#> gene 53 0 0 0 0 0
#> gene 54 0 0 0 0 0
#> gene 55 0 0 0 0 0
#> gene 56 0 0 0 0 0
#> gene 66 0 0 0 0 0
#> gene 69 0 0 0 0 0
#> gene 77 0 0 0 0 0
#> gene 88 0 0 0 0 0
#> gene 89 0 0 0 0 0
#> gene 91 0 0 0 0 0
#> gene 111 0 0 0 0 0
#> XOR_EZH2 0 0 0 0 0
#> OR_CSF3R 0 0 0 0 0
#>
#>
#> $model$capri_aic$score
#> [1] -277.5718
#>
#> $model$capri_aic$logLik
#> [1] -224.5718
#>
#>
#>
#> $parameters
#> $parameters$algorithm
#> [1] "CAPRI"
#>
#> $parameters$command
#> [1] "hc"
#>
#> $parameters$regularization
#> [1] "bic" "aic"
#>
#> $parameters$do.boot
#> [1] TRUE
#>
#> $parameters$nboot
#> [1] 100
#>
#> $parameters$pvalue
#> [1] 0.05
#>
#> $parameters$min.boot
#> [1] 3
#>
#> $parameters$min.stat
#> [1] TRUE
#>
#> $parameters$boot.seed
#> NULL
#>
#> $parameters$silent
#> [1] FALSE
#>
#> $parameters$error.rates
#> $parameters$error.rates$epos
#> [1] 0
#>
#> $parameters$error.rates$eneg
#> [1] 0
#>
#>
#>
#> $execution.time
#> user system elapsed
#> 8.081 0.194 8.184
#>
#> $kfold
#> $kfold$capri_bic
#> $kfold$capri_bic$prederr
#> $kfold$capri_bic$prederr$`ins_del TET2`
#> [1] 0.15 0.10
#>
#> $kfold$capri_bic$prederr$`ins_del EZH2`
#> [1] 0.075 0.025
#>
#> $kfold$capri_bic$prederr$`ins_del ASXL1`
#> [1] 0.175 0.175
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations SETBP1`
#> [1] 0.35 0.35
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations NRAS_Ex2_3`
#> [1] 0.075 0.075
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations KRAS_Ex2_3`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations TET2`
#> [1] 0.075 0.075
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations EZH2`
#> [1] 0.15 0.15
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations CBL_Ex_8_9`
#> [1] 0.075 0.125
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations IDH2_R140`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations SF3B1_Ex_12_15`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations JARID_2_Ex1_18`
#> [1] 0.025 0.075
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations EED_Ex2_12`
#> [1] 0.05 0.05
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations CEBPA`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations EPHB3`
#> [1] 0.1 0.1
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations ETNK1`
#> [1] 0.025 0.050
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations GATA2`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations IRAK4`
#> [1] 0.05 0.05
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations MTA2`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations CSF3R`
#> [1] 0.1 0.1
#>
#> $kfold$capri_bic$prederr$`missense_point_mutations KIT`
#> [1] 0.075 0.075
#>
#> $kfold$capri_bic$prederr$`nonsense_ins_del WT1`
#> [1] 0.025 0.000
#>
#> $kfold$capri_bic$prederr$`nonsense_ins_del RUNX_1`
#> [1] 0.050 0.025
#>
#> $kfold$capri_bic$prederr$`nonsense_ins_del CEBPA`
#> [1] 0.05 0.05
#>
#> $kfold$capri_bic$prederr$`nonsense_point_mutations TET2`
#> [1] 0.125 0.125
#>
#> $kfold$capri_bic$prederr$`nonsense_point_mutations EZH2`
#> [1] 0.025 0.025
#>
#> $kfold$capri_bic$prederr$`nonsense_point_mutations ASXL1`
#> [1] 0.10 0.15
#>
#> $kfold$capri_bic$prederr$`nonsense_point_mutations CSF3R`
#> [1] 0.075 0.075
#>
#> $kfold$capri_bic$prederr$`Pattern XOR_EZH2`
#> [1] 0.2 0.2
#>
#> $kfold$capri_bic$prederr$`Pattern OR_CSF3R`
#> [1] 0.15 0.15
#>
#>
#>
#> $kfold$capri_aic
#> $kfold$capri_aic$prederr
#> $kfold$capri_aic$prederr$`ins_del TET2`
#> [1] 0.075 0.075
#>
#> $kfold$capri_aic$prederr$`ins_del EZH2`
#> [1] 0.050 0.025
#>
#> $kfold$capri_aic$prederr$`ins_del ASXL1`
#> [1] 0.175 0.175
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations SETBP1`
#> [1] 0.35 0.35
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations NRAS_Ex2_3`
#> [1] 0.075 0.075
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations KRAS_Ex2_3`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations TET2`
#> [1] 0.150 0.075
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations EZH2`
#> [1] 0.15 0.15
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations CBL_Ex_8_9`
#> [1] 0.125 0.150
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations IDH2_R140`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations SF3B1_Ex_12_15`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations JARID_2_Ex1_18`
#> [1] 0.05 0.05
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations EED_Ex2_12`
#> [1] 0.05 0.05
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations CEBPA`
#> [1] 0.025 0.050
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations EPHB3`
#> [1] 0.075 0.025
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations ETNK1`
#> [1] 0.050 0.125
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations GATA2`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations IRAK4`
#> [1] 0.025 0.075
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations MTA2`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations CSF3R`
#> [1] 0.1 0.1
#>
#> $kfold$capri_aic$prederr$`missense_point_mutations KIT`
#> [1] 0.075 0.025
#>
#> $kfold$capri_aic$prederr$`nonsense_ins_del WT1`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`nonsense_ins_del RUNX_1`
#> [1] 0.050 0.025
#>
#> $kfold$capri_aic$prederr$`nonsense_ins_del CEBPA`
#> [1] 0.05 0.10
#>
#> $kfold$capri_aic$prederr$`nonsense_point_mutations TET2`
#> [1] 0.125 0.125
#>
#> $kfold$capri_aic$prederr$`nonsense_point_mutations EZH2`
#> [1] 0.025 0.025
#>
#> $kfold$capri_aic$prederr$`nonsense_point_mutations ASXL1`
#> [1] 0.1 0.1
#>
#> $kfold$capri_aic$prederr$`nonsense_point_mutations CSF3R`
#> [1] 0.075 0.075
#>
#> $kfold$capri_aic$prederr$`Pattern XOR_EZH2`
#> [1] 0.2 0.2
#>
#> $kfold$capri_aic$prederr$`Pattern OR_CSF3R`
#> [1] 0.15 0.15
#>
#>
#>
#>