Man pages for dakl/clinseqr
Function used to analyze data in the clinseq project
| dot | Print a dot every k loops |
| genomeplot | plot a copy number profile |
| getCNArmSummary | Make a table of CN summary stats per chromosome arm |
| getCombinedMaf | Get a combined MAF from a set of reports |
| getGeneBodyCoverage | Get normalized gene body coverage for reports |
| getGeneExprMatrix | Get gene expression from htseq-count |
| getHSMetrics | Get HS Metrics |
| getIsoformExprMatrix | Get isoform expression from sailfish output |
| getMarkDupsMetrics | Get MarkDups Metrics |
| getOncofuse | Get Oncofuse results |
| getQDNAseq | Get segmented CNV data |
| getReadcountPerChr | Get read count per chromsome |
| getReports | Get a data frame with all reports found in path |
| getRNAseqMetrics | Get normalized gene body coverage for reports |
| getSailfishMetrics | Get metrics from sailfish |
| makeEmptyDataTable | Make an empty data.table from a vector of column names |
| multiplot | Multiple plot function |
