Man pages for bhklab/rPharmacoDI
PharmacoDB Data Ingestion - functions for converting pSets to PharmacoDB database tables
| convertGeneSignatureToDT | Take a SignatureClass object, convert it to a data.table and... |
| convertMetaAnalysisToDT | Parse gene signature metaanalysis .rds files into a... |
| dot-convertSEToDataTableList | Convert the data in a SummarizedExperiment into a 'list' of... |
| dot-removeEnsemblVersion | Regex off Ensembl identifier version numbers |
| dot-sensSlotToDataTables | Convert the sensitivity slot of a PSet into a list of... |
| dot-writeAnnotationToTxt | Write the annotation list in a PharmacoSet to a text file |
| dot-writeMolecularProfilesToCsv | Convert each SummarizedExperiment in a CSet into a list of... |
| dot-writeMolecularProfilesToParquet | Convert each SummarizedExperiment in a CSet into a list of... |
| dot-writeSensitivityToCsv | Convert a PSets' sensitivty slot into a long data.table and... |
| dot-writeSensitivityToParquet | Convert a PSets' sensitivty slot into a long data.table and... |
| geneAnnotationToCSV | Dump gene annotation files to .csv for use in PharmacoDI |
| getPSetGeneSigs | Read in all the gene signatures for a PharmacoSet and... |
| mergePSetGeneSigsToDT | Merge the results data for a list of 'PharmacoSig' objects... |
| processGeneSignatureFiles | Read gene signature files for many experiments and merge them... |
| processPanCancerGeneSignatureFiles | Read pan-cancer gene signature files and merge them into a... |
| readGeneSig | Read a gene signature from a binary file format |
| readGeneSigsForPSet | Takes in the path to a set of gene signature .rds files,... |
| readSigToDT | Read a gene signature file, then convert it to a 'data.table' |
| removeNonASCII | Remove all non-ascii characters from a data.frame |
| stripEnsemblVersion-PharmacoSet-method | Remove version numbers from |
| writeToCsv | Generic for writing an R object to one or more csv files |
| writeToCsv-PharmacoSet-method | Convert all data in an 'PharmacoSet' object to disk as .csv... |
| writeToParquet | Generic for writing an R object to one or more csv files |
| writeToParquet-PharmacoSet-method | Convert all data in an 'PharmacoSet' object to disk as... |
| zeroPad | Prepend zeros to an integer until its string representation... |
