API for Wedge-lab/dpclust3p
Dirichlet Process Clustering Pre-Processing Package
| Global functions | |
|---|---|
| GetCellularity | Source code |
| GetDirichletProcessInfo | Source code |
| GetWTandMutCount | Source code |
| PottsCompact | Source code |
| addVcfInfoCol | Source code |
| addYchromToBattenberg | Source code |
| alleleCount | Man page Source code |
| ascatNgsToBattenberg | Man page Source code |
| ascatToBattenberg | Man page Source code |
| calc_power | Man page Source code |
| collate_bb_subclones | Man page Source code |
| compact | Source code Source code |
| concat_files | Man page Source code |
| construct_allelecounter_table | Source code |
| createHistFacetPlot | Source code |
| createPng | Man page Source code |
| createProjectFile | Man page Source code |
| dpIn2vcf | Man page Source code |
| dpclust3p | Man page |
| dumpCounts.Broad | Man page Source code |
| dumpCounts.DKFZ | Man page Source code |
| dumpCounts.ICGCconsensusIndel | Man page Source code |
| dumpCounts.ICGCconsensusSNV | Man page Source code |
| dumpCounts.Muse | Man page Source code |
| dumpCounts.Sanger | Man page Source code |
| dumpCounts.StrelkaIndel | Man page Source code |
| dumpCounts.cgpPindel | Man page Source code |
| dumpCounts.mutect | Man page Source code |
| dumpCounts.scalpel | Man page Source code |
| dumpCountsFromVcf | Source code |
| exactPcf | Source code |
| extend_bb_cn_categories | Man page Source code |
| filterForDeaminase | Man page Source code |
| filterForSignature | Man page Source code |
| filterMarkS4 | Source code |
| findEst | Source code |
| findMarks | Source code |
| formatOutput | Source code |
| getAlleleCounts.Broad | Source code |
| getAlleleCounts.DKFZ | Source code |
| getAlleleCounts.ICGC_consensus_indel | Source code |
| getAlleleCounts.ICGC_consensus_snv | Source code |
| getAlleleCounts.MuSE | Source code |
| getAlleleCounts.Sanger | Source code |
| getAlleleCounts.Scalpel_indel | Source code |
| getAlleleCounts.Strelka_indel | Source code |
| getAlleleCounts.cgpPindel_indel | Source code |
| getAlleleCounts.mutect | Source code |
| getAltAllele | Man page Source code |
| getCountsNormal | Source code |
| getCountsTumour | Source code |
| getMad | Source code |
| getTrinucleotideContext | Man page Source code |
| get_bb_cn_catalog | Man page Source code |
| identifyKataegis | Man page Source code |
| makeKataegisPlot | Source code |
| markWithPotts | Source code |
| medianFilter | Source code |
| meltFacetPlotData | Source code |
| mut_cn_phasing | Man page Source code |
| mut_mut_phasing | Man page Source code |
| mutationBurdenToMutationCopyNumber | Man page Source code |
| mutationCopyNumberToMutationBurden | Man page Source code |
| parseFai | Man page Source code |
| parseIgnore | Man page Source code |
| plot_ccf_hist | Man page |
| plot_mcn_hist | Man page |
| plot_vaf_hist | Man page |
| runFastPcf | Source code |
| runGetDirichletProcessInfo | Man page Source code |
| runPcfSubset | Source code |
| run_linkage_pull_mut | Source code |
| run_linkage_pull_snp | Source code |
| selectFastPcf | Source code |
| split_by_chrom | Man page Source code |
| vcf2loci | Man page Source code |
