Man pages for amf71/amfFunctions
List of functions written by Alex Frankell that are open to the public
| add.cummulative.start.end | add cummulaative start / end columns too order the genome... |
| calc.ploidy | Function to calculate ploidy distribution and main ploidy per... |
| calc.wgii | Function to caulcated wgII from seg CN data |
| cal.Subject.accross.regions | Function to adjust any quantification (subject) for... |
| correct.specific.ps | Function to FDR correct a set of p-values even when... |
| extract_ccf_table | Function to extract CCF tables from a TRACERx mutTable... |
| extract.tree.mutTable | function to exact tree that hase been overlaid onto a TRACERx... |
| integrate.mutTables | function to merge MutTables ensuring the sampleID formats etc... |
| interpret_following_Args | Function to allow R script to interpret following arguments... |
| make.axis.adjust.cummulative | Function to make a cummulative x axis for chromosomes across... |
| mceiling | function to round up to a specific base |
| mfloor | function to roun down to a specific base |
| mround | function to round to a specific base |
| Overlay.tree.parents | function to overlay tree information onto a TRACERx mutTable |
| read_trees | Function to extract the tree information from all patients in... |
| rename.TxIDs.in.mutid | function to rename TRACERx mutation ids with correct most up... |
| trx_rename.fn | Function to rename any TRACERx patient ids to the latest... |
