gbmMuexSubsampling: Stability of mutually exclusive groups in the glioblastoma...

In cbg-ethz/TiMEx: Finding Mutually Exclusive Groups of Alterations in Cancer Datasets

Description

Dataset containing the stability of the mutually exclusive groups identified by TiMEx in the glioblastoma dataset used in Szczurek et. al: Modeling mutual exclusivity of cancer mutations. Research in Computational Molecular Biology (2014), after subsampling the set of patients at frequencies of 30%, 50%, and 80%, 100 times.

Format

gbmMuexSubsampling is a list with as many elements as subsampling frequencies provided. Each element is further a list with as many elements as number of sizes of the significantly mutually exclusive groups identified. Additionally, bonf and fdr are two lists corresponding to each of these elements, representing different multiple correction methods. Finally, each element is a vector of subsampling frequencies of the significant mutually exclusive groups identified. For example, gbmMuexSubsampling[[1]][[3]] represents the relative counts of the identified mutually exclusive groups of size 3 for a subsampling frequency of 30%, for both fdr and bonf (bonferroni) multiple correction methods.

Source

Produced with the function subsampleAnalysis, ran with the inputs

subsampl<-c(0.3,0.5,0.8)

noReps<-100

and the mutually exclusive groups from gbmMuexOutput.

cbg-ethz/TiMEx documentation built on May 13, 2019, 1:50 p.m.