Description Usage Arguments Value References
View source: R/multipleSource.R
This function uses Fisher exact test to filter multiple sources that contaminate a particular target sample
1 | multipleSource(sample_pairs,VAFdata,VAFcov,VAF_cutoff,VAF_cutoff1,p.val_cutoff,output_path)
|
sample_pairs |
data frame, sample infomation |
VAFdata |
data frame, mutation VAF |
VAFcov |
data frame, mutation coverage |
VAF_cutoff |
numeric, minimum VAF (default: 0.002) |
VAF_cutoff1 |
numeric, minimum VAF to be considered a source mutation (default: 0.05) |
p.val_cutoff |
numeric, pval cutoff to be considered a significant contamination source (default: 0.05) |
output_path |
character, output directory |
list, remaining paiwise sample relationship information after Fisher exact test that eliminates insignificant contamination pair
TBA
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