Man pages for lpwgit/sampleContamination
Sample Contamination R Package
| filterByCov | Filter mutations base on coverage |
| filterCommonSNPs | Filter mutations base on coefficient of variant |
| filterMultiSources | Filter multisource contamination |
| inputData | Read in data from a file |
| is_scalar_character | Check for scalar argument |
| mixingRatio | Calculate contamination level |
| multipleSource | Identify true source from multisource contamination |
| numMutationperSample | Count number of SNPs in each sample |
| pairCountPoint | Count number of SNPs in 7 regions of a given pair of sample |
| pairPCommon | Pairwise Sample Function |
| pairRelation | Determine relationship between pairwise sample |
| regionCountMutation | Count number of mutation in 7 regions of VAF scatter plot for... |
| run_sampleContamination | Main function to run sample contamination analysis |
| setParameterConfig | Set parameters base on configuration file |
