Man pages for shaghayeghsoudi/DPclust3p_Customised
Dirichlet Process Clustering Pre-Processing Package
| ascatNgsToBattenberg | Transform ASCAT NGS output into Battenberg |
| ascatToBattenberg | Transform ASCAT output into Battenberg |
| calc_power | Calculate power to call subclones. |
| collate_bb_subclones | This function takes a Battenberg styled data.frame, pulls out... |
| concat_files | Concatenate split files |
| createPng | Create a PNG file |
| createProjectFile | Creates a DPClust project master file |
| dpclust3p | Dirichlet Process Clustering PreProcessing Package |
| dumpCounts.maf | Run alleleCount Dump allele counts from maf file |
| extend_bb_cn_categories | This function extends existing categories by a list of sizes |
| get_bb_cn_catalog | Count how often each of the categories is present in this... |
| identifyKataegis | Identify Kataegis events in SNV mutation data |
| maf2loci | Transform vcf to loci file |
| mutationBurdenToMutationCopyNumber | Mutation burden to mutation copy number |
| mutationCopyNumberToMutationBurden | Mutation copy number to mutation burden |
| mut_cn_phasing | Phase mutation to SNP/copy number |
| mut_mut_phasing | Phase mutation to mutation |
| plot_ccf_hist | Plot cancer cell fraction histogram |
| plot_mcn_hist | Plot mutation copy number histogram |
| plot_vaf_hist | Plot allele frequency histogram |
| runGetDirichletProcessInfo | Create the DPClust input file |
| split_by_chrom | Split a file per chromosome |
