API for cmatKhan/brentlabRnaSeqTools
A Collection of Functions to Interact with the Brentlab RNASeq Database
| Global functions | |
|---|---|
| archiveDatabase | Man page Source code |
| calculateGeneWiseMedians | Man page |
| calculateRLE | Man page Source code |
| connectToDatabase | Man page Source code |
| createBamPath | Man page Source code |
| createEnvPertSet | Man page Source code |
| createIgvBatchscript | Man page Source code |
| createInductionSetTally | Man page Source code |
| createNfCorePipelineSampleSheet | Man page Source code |
| createNinetyMinInductionModelMatrix | Man page Source code |
| createNinetyMinuteInductionSet | Man page |
| createNinetyMinuteInductionWithDoubles | Man page |
| createQCdatabase | Man page Source code |
| database_colnames | Man page |
| database_info | Man page |
| deseqObjectWithProtocolSpecificSizeFactors | Man page Source code |
| determineLibraryStrandedness | Man page Source code |
| examineSingleGroupWithLibDateSizeFactors | Man page Source code |
| featureGRanges | Man page Source code |
| fltrLowReplicateParams | Man page Source code |
| getBamIndexPath | Man page Source code |
| getMetadata | Man page Source code |
| getRawCounts | Man page Source code |
| getRunNumberLeadingZero | Man page Source code |
| getUserAuthToken | Man page Source code |
| grant_df | Man page |
| graphYeastTimeCourse | Man page Source code |
| isNumeric | Man page |
| is_integer64 | Man page Source code |
| listTables | Man page Source code |
| loadAnnotationDatabase | Man page Source code |
| localView | Man page Source code |
| moveNfCoFastqFiles | Man page Source code |
| parseComparatives | Man page Source code |
| patchTable | Man page |
| plotCoverageOverLocus | Man page Source code |
| postCounts | Man page |
| postFastqSheet | Man page Source code |
| postQcSheet | Man page |
| postTable | Man page |
| proteinCodingCount | Man page Source code |
| qualityAssessmentFilter | Man page Source code |
| readInData | Man page Source code |
| removeOneRedoIqr | Man page Source code |
| removeParameterEffects | Man page Source code |
| rleByReplicateGroup | Man page |
| rlePlot | Man page |
| rlePlotCompareEffectRemoved | Man page |
| rlePlot_helper | Man page |
| rleSummary | Man page |
| runSVA | Man page Source code |
| run_numbers_with_leading_zero | Man page |
| selectQaColumns | Man page Source code |
| strandedScanBamParam | Man page Source code |
| testBamPath | Man page Source code |
