API for biovizBase
Basic graphic utilities for visualization of genomic data.
| Global functions | |
|---|---|
| .AAAlphabetColor | Source code |
| .AminoAcidCodeColor | Source code |
| .DNAAlphabetColor | Source code |
| .DNABasesColor | Source code |
| .DNABasesNColor | Source code |
| .IUPACCodeMapColor | Source code |
| .RNAAlphabetColor | Source code |
| .RNABasesColor | Source code |
| .RNABasesNColor | Source code |
| .checkFacetsRestrict | Source code |
| .colorschemes.num | Source code |
| .cytobandColor | Source code |
| .getCytobandColor | Source code |
| .onLoad | Source code |
| .strandColor | Source code |
| .transformSeqinfo | Source code |
| CRC | Man page |
| GCcontent | Man page Source code |
| addStepping | Man page |
| addStepping,GenomicRanges-method | Man page |
| biovizBase | Man page |
| biovizBase-package | Man page Man page |
| blind.pal.info | Man page |
| brewer.pal.blind.info | Man page |
| centroidPos | Source code |
| check.integer | Source code |
| colorBlindSafePal | Man page Source code |
| containLetters | Man page Source code |
| crc.gr | Man page |
| crc1.GeRL | Man page Man page |
| crunch | Man page |
| crunch,BamFile-method | Man page |
| crunch,EnsDb-method | Man page |
| crunch,GAlignments-method | Man page |
| crunch,TxDb-method | Man page |
| darned_hg19_subset500 | Man page Man page |
| dichromat.pal.blind.info | Man page |
| estimateCoverage | Man page |
| estimateCoverage,BamFile-method | Man page |
| fetch | Source code |
| flatGrl | Man page Source code |
| genBlindPalInfo | Man page Source code |
| genBrewerBlindPalInfo | Man page Source code |
| genDichromatPalInfo | Man page Source code |
| genGenesymbolTable | Source code |
| genSymbols | Source code |
| genesymbol | Man page Man page |
| getBioColor | Man page Source code |
| getFormalNames | Man page Source code |
| getGaps | Man page |
| getGaps,GRanges-method | Man page |
| getIdeoGR | Man page Source code |
| getIdeogram | Man page Source code |
| getScale | Man page Source code |
| getXLab | Man page |
| getXLab,GAlignments-method | Man page |
| getXLab,GRanges-method | Man page |
| getXLab,GRangesList-method | Man page |
| getXLab-method | Man page |
| getXScale | Man page |
| getXScale,GRanges-method | Man page |
| getYLab | Man page |
| getYLab,TxDb-method | Man page |
| ggplot2_is.constant | Source code |
| ggplot2_is_calculated_aes | Source code |
| ggplot2_strip_dots | Source code |
| hg19Ideogram | Man page Man page |
| hg19IdeogramCyto | Man page Man page |
| hg19sub | Man page |
| ideo | Man page |
| ideoCyto | Man page |
| isFacetByOnlySeq | Source code |
| isIdeogram | Man page Source code |
| isJunctionRead | Man page Source code |
| isMatchedWithModel | Man page Source code |
| isSimpleIdeogram | Man page Source code |
| is_coord_genome | Man page Source code |
| is_coord_truncate_gaps | Man page Source code |
| is_homo | Source code |
| maxGap | Man page |
| maxGap,GenomicRanges-method | Man page |
| mold | Man page |
| mold,ExpressionSet-method | Man page |
| mold,GRanges-method | Man page |
| mold,GRangesList-method | Man page |
| mold,IRanges-method | Man page |
| mold,RangedSummarizedExperiment-method | Man page |
| mold,Rle-method | Man page |
| mold,RleList-method | Man page |
| mold,Seqinfo-method | Man page |
| mold,SummarizedExperiment-method | Man page |
| mold,VRanges-method | Man page |
| mold,Views-method | Man page |
| mold,eSet-method | Man page |
| mold,matrix-method | Man page |
| mut.gr | Man page |
| newDataAfterFacetByGr | Source code |
| parseArgsForAes | Man page Source code |
| parseArgsForNonAes | Man page Source code |
| pileupAsGRanges | Man page Source code |
| pileupGRangesAsVariantTable | Man page Source code |
| plotColorLegend | Man page Source code |
| pspanGR | Source code |
| rectifySeqlevelsStyle | Source code |
| reduceNtruncate | Source code |
| rescaleGr | Source code |
| scanBamGRanges | Source code |
| showColor | Man page Source code |
| show_col2 | Source code |
| shrinkageFun | Man page |
| shrinkageFun,GenomicRanges-method | Man page |
| shrinkageFun,IRanges-method | Man page |
| splitByFacets | Man page |
| splitByFacets,GRanges,GRanges-method | Man page |
| splitByFacets,GRanges,NULL-method | Man page |
| splitByFacets,GRanges,formula-method | Man page |
| splitByFacets,GRanges,missing-method | Man page |
| strip_formula_dots | Man page Source code |
| subsetArgsByFormals | Man page Source code |
| transformDfToGr | Man page Source code |
| transformGRangesForEvenSpace | Man page Source code |
| transformToArch | Man page |
| transformToArch,GRanges-method | Man page |
| transformToBarInCircle | Man page Source code |
| transformToCircle | Man page Source code |
| transformToDf | Man page |
| transformToDf,GRanges-method | Man page |
| transformToDf-method | Man page |
| transformToEven | Source code |
| transformToGenome | Man page |
| transformToGenome,GRanges-method | Man page |
| transformToGenome,GRangesList-method | Man page |
| transformToLinkInCircle | Man page Source code |
| transformToRectInCircle | Man page Source code |
| transformToSegInCircle | Man page Source code |
| transformToSegInCircle2 | Source code |
