Returns a dataframe with all the bootstrap score in a TRONCO model. It is possible to specify a subset of events or models if multiple reconstruction have been performed.
All the bootstrap scores in a TRONCO model
data(test_model)
as.bootstrap.scores(test_model)
#> $capri_bic
#> SELECTS SELECTED
#> 1 ins_del TET2 missense_point_mutations KIT
#> 2 ins_del ASXL1 missense_point_mutations TET2
#> 3 missense_point_mutations SETBP1 nonsense_point_mutations ASXL1
#> 4 missense_point_mutations NRAS_Ex2_3 missense_point_mutations JARID_2_Ex1_18
#> 5 missense_point_mutations NRAS_Ex2_3 missense_point_mutations IRAK4
#> 6 missense_point_mutations TET2 ins_del EZH2
#> 7 missense_point_mutations EZH2 ins_del TET2
#> 8 missense_point_mutations EZH2 missense_point_mutations CEBPA
#> 9 missense_point_mutations EZH2 missense_point_mutations ETNK1
#> 10 missense_point_mutations KIT nonsense_ins_del RUNX_1
#> 11 nonsense_ins_del CEBPA missense_point_mutations EED_Ex2_12
#> 12 nonsense_ins_del CEBPA nonsense_ins_del WT1
#> 13 nonsense_point_mutations ASXL1 missense_point_mutations CBL_Ex_8_9
#> 14 nonsense_point_mutations ASXL1 missense_point_mutations EPHB3
#> OBS.SELECTS OBS.SELECTED
#> 1 3 2
#> 2 7 3
#> 3 14 4
#> 4 3 1
#> 5 3 1
#> 6 3 1
#> 7 6 3
#> 8 6 1
#> 9 6 1
#> 10 2 1
#> 11 2 1
#> 12 2 1
#> 13 4 3
#> 14 4 1
#>
#> $capri_aic
#> SELECTS SELECTED
#> 1 ins_del TET2 missense_point_mutations CBL_Ex_8_9
#> 2 ins_del TET2 missense_point_mutations KIT
#> 3 ins_del ASXL1 missense_point_mutations KRAS_Ex2_3
#> 4 ins_del ASXL1 missense_point_mutations TET2
#> 5 missense_point_mutations SETBP1 nonsense_point_mutations EZH2
#> 6 missense_point_mutations SETBP1 nonsense_point_mutations ASXL1
#> 7 missense_point_mutations NRAS_Ex2_3 missense_point_mutations JARID_2_Ex1_18
#> 8 missense_point_mutations NRAS_Ex2_3 missense_point_mutations IRAK4
#> 9 missense_point_mutations TET2 ins_del EZH2
#> 10 missense_point_mutations TET2 nonsense_ins_del CEBPA
#> 11 missense_point_mutations EZH2 ins_del TET2
#> 12 missense_point_mutations EZH2 missense_point_mutations CEBPA
#> 13 missense_point_mutations EZH2 missense_point_mutations ETNK1
#> 14 missense_point_mutations CSF3R missense_point_mutations TET2
#> 15 missense_point_mutations KIT nonsense_ins_del RUNX_1
#> 16 nonsense_ins_del CEBPA missense_point_mutations EED_Ex2_12
#> 17 nonsense_ins_del CEBPA nonsense_ins_del WT1
#> 18 nonsense_point_mutations ASXL1 missense_point_mutations CBL_Ex_8_9
#> 19 nonsense_point_mutations ASXL1 missense_point_mutations EPHB3
#> 20 Pattern OR_CSF3R nonsense_ins_del CEBPA
#> OBS.SELECTS OBS.SELECTED
#> 1 3 3
#> 2 3 2
#> 3 7 1
#> 4 7 3
#> 5 14 1
#> 6 14 4
#> 7 3 1
#> 8 3 1
#> 9 3 1
#> 10 3 2
#> 11 6 3
#> 12 6 1
#> 13 6 1
#> 14 4 3
#> 15 2 1
#> 16 2 1
#> 17 2 1
#> 18 4 3
#> 19 4 1
#> 20 6 2
#>
as.bootstrap.scores(test_model, events=as.events(test_model)[5:15,])
#> $capri_bic
#> SELECTS SELECTED
#> 1 missense_point_mutations NRAS_Ex2_3 missense_point_mutations JARID_2_Ex1_18
#> 2 missense_point_mutations EZH2 missense_point_mutations CEBPA
#> OBS.SELECTS OBS.SELECTED
#> 1 3 1
#> 2 6 1
#>
#> $capri_aic
#> SELECTS SELECTED
#> 1 missense_point_mutations NRAS_Ex2_3 missense_point_mutations JARID_2_Ex1_18
#> 2 missense_point_mutations EZH2 missense_point_mutations CEBPA
#> OBS.SELECTS OBS.SELECTED
#> 1 3 1
#> 2 6 1
#>