API for VladaMilch/pdProbeRemap
What the package does (short line)
| Global functions | |
|---|---|
| .combineIdx | Source code Source code Source code |
| .idxToIdx | Source code Source code Source code |
| Alignments | Man page |
| Alignments-class | Man page |
| Alignments_class_example | Man page |
| Annotation_example | Man page |
| addControlProbes | Source code |
| alignments2parsedData | Man page Source code |
| alignments2probesetsRaw | Man page Source code |
| annot2fdata | Source code |
| annotate.G.alignment | Man page |
| annotate.G.alignment_exon | Source code |
| annotate.T.alignment | Man page Source code |
| annotate.non25M.genomic.transcrits_wise | Man page Source code |
| annotation2fasta | Man page Source code |
| atomIdxToProbeIdx | Source code Source code Source code |
| build_new_ParsedDataOld_object_CDF | Source code |
| build_new_ParsedDataOld_object_PGF | Man page Source code |
| checkFields | Source code |
| check_ProbeSetDataAnnotation | Source code |
| check_ProbeSetDataFrame | Source code |
| cigar2_left | Man page Source code |
| cigar2_right | Man page Source code |
| cigar2length | Man page Source code |
| cleanProbeSets | Man page Source code |
| closeDb | Source code |
| combinePgfClfProbesetsMps | Source code Source code Source code |
| combinePgfClfProbesetsMps0 | Source code Source code Source code |
| combinePgfClfProbesetsMps_andWriteAllProbesFile | Source code |
| connectDb | Source code |
| createChrDict | Source code |
| createSeqMat | Source code |
| createSeqMat.cnv | Source code |
| dbCreateIndex | Source code |
| dbCreateIndicesBg | Source code |
| dbCreateIndicesBgTiling | Source code |
| dbCreateIndicesCnvPm | Source code |
| dbCreateIndicesFs | Source code |
| dbCreateIndicesFsCnv | Source code |
| dbCreateIndicesMm | Source code |
| dbCreateIndicesPm | Source code |
| dbCreateIndicesPmTiling | Source code |
| dbCreateIndicesSnpPm | Source code |
| dbCreateTable | Source code |
| dbCreateTableInfo | Source code |
| dbInsertDataFrame | Source code |
| filter.ATTG.alignment.df | Source code |
| filter.T.alignment | Man page Source code |
| findInclusion | Source code |
| getAnnotationFilesFromDir | Source code |
| getControlProbes | Source code |
| getExonExonBorder | Man page Source code |
| getLevelSchema | Source code |
| getTypeSchema | Source code |
| increaseDbPerformance | Source code |
| insertInFragmentLengthTable | Source code |
| line2vals | Source code |
| make.original.package.object.fromCDF | Source code |
| make.original.package.object.fromPGF | Source code |
| makeNewAnnotationPackage | Man page Source code |
| makeNewAnnotationPackage_inner | Source code |
| makeOriginalPackageObject | Man page Source code |
| make_objects_for_reannotation | Man page Source code |
| make_package_from_parsedData | Source code |
| make_package_from_parsedData_fromCDF | Source code |
| make_package_from_parsedData_fromPGF | Source code |
| mpsParser | Source code Source code Source code |
| msgBar | Source code Source code |
| msgOK | Source code Source code |
| msgParsingFile | Source code Source code |
| parseCdfCelProbe | Source code |
| parseCdfCelProbe_andWriteAllProbesFile | Source code |
| parsePgfClf | Source code Source code Source code |
| parseProbesetCSV | Source code Source code Source code |
| printTime | Source code |
| probesetIdxToAtomIdx | Source code Source code Source code |
| probesetIdxToTripletIdx | Source code Source code Source code |
| processAlignments | Man page Source code |
| read.sam | Man page Source code |
| seed_example | Man page |
| seqToMat | Source code |
| setupPackage | Source code |
| simpleMessage | Source code |
| star.command.make | Man page Source code |
| validInput | Source code |
