Files in databio/GenomicDistributions
GenomicDistributions: fast analysis of genomic intervals with Bioconductor

.Rbuildignore
.github/.gitignore
.github/workflows/lint.yml
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/aggregate.R R/buildReferenceData.R R/chrom-plots.R R/content-plots.R R/data.R R/feature-plots.R R/loadData.R R/neighbor-distances.R R/package.R R/partition-plots.R R/qthist.R R/specificity-plots.R R/utility.R R/zalias.R README.md
_pkgdown.yaml
data-raw/TSS_hg19.R data-raw/bedfiles.R data-raw/chromSizes_hg19.R data-raw/geneModels_hg19.R
data/TSS_hg19.rda
data/cellTypeMetadata.rda
data/chromSizes_hg19.rda
data/datalist
data/exampleOpenSignalMatrix_hg19.rda
data/geneModels_hg19.rda
data/setB_100.rda
data/vistaEnhancers.rda
inst/CITATION
inst/extdata/C_elegans_cropped_example.fa.gz
inst/extdata/C_elegans_cropped_example.gtf.gz
inst/extdata/example_cell_matrix.txt
inst/extdata/setB_100.bed.gz
inst/extdata/vistaEnhancers.bed.gz
long_vignettes/full-power.Rmd long_vignettes/render-long-vignettes.R man/BSdtToGRanges.Rd man/GenomicDistributions.Rd man/TSS_hg19.Rd man/binBSGenome.Rd man/binChroms.Rd man/binRegion.Rd man/calcChromBins.Rd man/calcChromBinsRef.Rd man/calcChromBinsRefSlow.Rd man/calcCumulativePartitions.Rd man/calcCumulativePartitionsRef.Rd man/calcDinuclFreq.Rd man/calcDinuclFreqRef.Rd man/calcExpectedPartitions.Rd man/calcExpectedPartitionsRef.Rd man/calcFeatureDist.Rd man/calcFeatureDistRefTSS.Rd man/calcGCContent.Rd man/calcGCContentRef.Rd man/calcNearestNeighbors.Rd man/calcNeighborDist.Rd man/calcPartitions.Rd man/calcPartitionsRef.Rd man/calcSummarySignal.Rd man/calcWidth.Rd man/cellTypeMetadata.Rd man/chromSizes_hg19.Rd man/dot-requireAndReturn.Rd man/dot-validateInputs.Rd man/dtToGr.Rd man/dtToGrInternal.Rd man/exampleOpenSignalMatrix_hg19.Rd man/geneModels_hg19.Rd man/genomePartitionList.Rd man/getChromSizes.Rd man/getChromSizesFromFasta.Rd man/getGeneModels.Rd man/getGeneModelsFromGTF.Rd man/getGenomeBins.Rd man/getReferenceData.Rd man/getTssFromGTF.Rd man/grToDt.Rd man/labelCuts.Rd man/loadBSgenome.Rd man/loadEnsDb.Rd man/neighbordt.Rd man/nlist.Rd man/plotChromBins.Rd man/plotCumulativePartitions.Rd man/plotDinuclFreq.Rd man/plotExpectedPartitions.Rd man/plotFeatureDist.Rd man/plotGCContent.Rd man/plotNeighborDist.Rd man/plotPartitions.Rd man/plotQTHist.Rd man/plotSummarySignal.Rd man/retrieveFile.Rd man/setB_100.Rd man/splitDataTable.Rd man/theme_blank_facet_label.Rd man/vistaEnhancers.Rd tests/testthat.R tests/testthat/testChrom.R tests/testthat/testGCContent.R tests/testthat/testNeighborDist.R tests/testthat/testOpenChromatin.R tests/testthat/testPartitions.R tests/testthat/test_all.R
vignettes/figures-full-power/GC-content-1.png
vignettes/figures-full-power/TSS-plot-1.png
vignettes/figures-full-power/TSS-plot-closeup-1.png
vignettes/figures-full-power/chrom-bin-plot-1.png
vignettes/figures-full-power/cumulative-partitions-1.png
vignettes/figures-full-power/custom-cumulative-partitions-1.png
vignettes/figures-full-power/custom-expected-partition-plot-1.png
vignettes/figures-full-power/custom-partition-plot-1.png
vignettes/figures-full-power/dinuc-content-1.png
vignettes/figures-full-power/expected-partition-plot-1.png
vignettes/figures-full-power/gene-distance-plot-1.png
vignettes/figures-full-power/neighbor-distance-distribution-1.png
vignettes/figures-full-power/open-signal-1.png
vignettes/figures-full-power/partition-plot-1.png
vignettes/figures-full-power/partition-plot-proportional-1.png
vignettes/figures-full-power/width-distribution-1.png
vignettes/full-power.Rmd vignettes/intro.Rmd
databio/GenomicDistributions documentation built on April 30, 2024, 4:34 a.m.