Files in Bioconductor-mirror/genomation
Summary, annotation and visualization of genomic data

.Rbuildignore
.Rinstignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS
R/Ops.R R/combineScoreMatrixList.R R/deprecated_defunct.R R/documentData.R R/findFeatureComb.R R/genomation-classes.R R/getRandomEnrichment.R R/patternMatrix.R R/plotMatrix.R R/randomizeFeature.R R/readAnnotate.R R/readData.R R/scoreMatrix.R R/scoreMatrixBin.R R/scoreMatrixList.R R/test_genomation_package.R README.md
data/cage.RData
data/cpgi.RData
data/genes.RData
data/promoters.RData
inst/CITATION
inst/doc/GenomationManual.html
inst/extdata/EnhancersEncode.txt.Test
inst/extdata/Fantom4.Cage.Test
inst/extdata/chr21.CpGi.hg19.bed
inst/extdata/chr21.refseq.hg19.bed
inst/extdata/chr21.refseq.hg19.gtf
inst/extdata/ex.broadPeak
inst/extdata/ex.narrowPeak
inst/extdata/tab1.bed
inst/extdata/tab2.bed
inst/extdata/tab3.bed
inst/scripts/FunctionNames.txt
inst/scripts/devtools_test.R inst/scripts/produceDataForExamples.R
inst/unitTests/tab.test1
inst/unitTests/tab.test2
inst/unitTests/tab.test3
inst/unitTests/tab.test3.zip
inst/unitTests/tab.test4
inst/unitTests/test.bam
inst/unitTests/test.bam.bai
inst/unitTests/test.bedGraph
inst/unitTests/test.bw
inst/unitTests/test.gtf
inst/unitTests/test_PatternMatrix.R inst/unitTests/test_ScoreMatrix.R inst/unitTests/test_ScoreMatrixBin.R inst/unitTests/test_ScoreMatrixList.R
inst/unitTests/test_pairedend.bam
inst/unitTests/test_pairedend.bam.bai
inst/unitTests/test_readData.R man/AnnotationByFeature-class.Rd man/AnnotationByGeneParts-class.Rd man/AnnotationByGeneParts-methods.Rd man/Ops-ScoreMatrix-ScoreMatrix-method.Rd man/Ops-ScoreMatrixList-ScoreMatrixList-method.Rd man/Ops-ScoreMatrixList-numeric-method.Rd man/Ops-numeric-ScoreMatrixList-method.Rd man/RandomEnrichment-class.Rd man/ScoreMatrix-class.Rd man/ScoreMatrix-methods.Rd man/ScoreMatrixBin-methods.Rd man/ScoreMatrixList-class.Rd man/ScoreMatrixList-methods.Rd man/annotateWithFeature-methods.Rd man/annotateWithFeatureFlank-methods.Rd man/annotateWithFeatures-methods.Rd man/annotateWithGeneParts-methods.Rd man/binMatrix-methods.Rd man/cage.Rd man/calculateOverlapSignificance-methods.Rd man/convertBed2Exons-methods.Rd man/convertBed2Introns-methods.Rd man/convertBedDf-methods.Rd man/cpgi.Rd man/findFeatureComb-methods.Rd man/genes.Rd man/getFeatsWithTargetsStats-methods.Rd man/getFlanks-methods.Rd man/getMembers-methods.Rd man/getRandomEnrichment-methods.Rd man/getTargetAnnotationStats-methods.Rd man/gffToGRanges.Rd man/heatMatrix.Rd man/heatMeta.Rd man/heatTargetAnnotation-methods.Rd man/intersectScoreMatrixList-methods.Rd man/multiHeatMatrix.Rd man/orderBy-methods.Rd man/patternMatrix-methods.Rd man/plotMeta.Rd man/plotTargetAnnotation-methods.Rd man/promoters.Rd man/randomizeFeature-methods.Rd man/readBed.Rd man/readBroadPeak.Rd man/readFeatureFlank-methods.Rd man/readGeneric.Rd man/readNarrowPeak.Rd man/readTranscriptFeatures-methods.Rd man/scaleScoreMatrix-methods.Rd man/scaleScoreMatrixList.Rd man/show-methods.Rd man/sub-ScoreMatrix-ANY-ANY-ANY-method.Rd man/sub-ScoreMatrixList-ANY-ANY-ANY-method.Rd tests/genomation_unit_tests.R
vignettes/Figures/ctcfScoreMatrixList-1.png
vignettes/Figures/genomationFlowChart1.png
vignettes/Figures/heatMatrix1-1.png
vignettes/Figures/heatMatrix1-2.png
vignettes/Figures/heatMatrix2-1.png
vignettes/Figures/heatMatrixScales-1.png
vignettes/Figures/multiHeatMatrix1-1.png
vignettes/Figures/multiHeatMatrix2-1.png
vignettes/Figures/plotGeneAnnotation-1.png
vignettes/Figures/plotGeneAnnotation-2.png
vignettes/Figures/plotScaledProfile-1.png
vignettes/Figures/visualizeFeatureComb-1.png
vignettes/GenomationManual-knitr.html
vignettes/GenomationManual.Rmd
Bioconductor-mirror/genomation documentation built on July 6, 2017, 5:10 a.m.