Files in ComputationalRegulatoryGenomicsICL/GenomicInteractions-new
Utilities for handling genomic interaction data
DESCRIPTION
NAMESPACE
NEWS
R/DocumentData.R
R/GenomicInteractions-class.R
R/GenomicInteractions-package.R
R/InteractionTrack-class.R
R/annotators.R
R/calculateDistances.R
R/export.R
R/export.igraph.R
R/getters.R
R/helpers.R
R/import.R
R/library.R
R/plotSummaryStats.R
R/processing.R
R/setters.R
R/subsetting.R
R/summarise_annotations.r
R/viewPoints.R
README.md
data/hg19.refseq.transcripts.rda
data/hic_example_data.rda
data/mm9_refseq_promoters.rda
data/thymus_enhancers.rda
inst/CITATION
inst/extdata/Seitan2013_WT_100kb_interactions.txt
inst/extdata/k562.rep1.cluster.pet3+.txt
man/GInteractions-subsetByFeatures-methods.Rd
man/GenomicInteractions-class.Rd
man/GenomicInteractions-package.Rd
man/GenomicInteractions.Rd
man/InteractionHelpers.Rd
man/InteractionTrack-class.Rd
man/InteractionTrack.Rd
man/annotateInteractions.Rd
man/annotateRegions.Rd
man/asBED-GInteractions-method.Rd
man/availableDisplayPars.Rd
man/calculateDistances.Rd
man/categoriseInteractions.Rd
man/countsBetweenAnchors-methods.Rd
man/dot-importHicLib.Rd
man/dot-importHomer.Rd
man/dot-processChiapetName.Rd
man/dot-readBam.Rd
man/dot-readTwoBams.Rd
man/dot-validateInput.Rd
man/export.bed12.Rd
man/export.bedpe.Rd
man/export.chiasig.Rd
man/export.igraph.Rd
man/get_binom_ligation_threshold.Rd
man/get_self_ligation_threshold.Rd
man/getters.Rd
man/hg19.refseq.transcripts.Rd
man/hic_example_data.Rd
man/makeGenomicInteractionsFromFile.Rd
man/mm9_refseq_promoters.Rd
man/plotAvgViewpoint.Rd
man/plotCisTrans.Rd
man/plotCounts.Rd
man/plotDists.Rd
man/plotInteractionAnnotations.Rd
man/plotSummaryStats.Rd
man/plotViewpoint.Rd
man/removeDups.Rd
man/resetAnnotations.Rd
man/sameStrand.Rd
man/setters.Rd
man/sum-GInteractions-method.Rd
man/summariseByFeaturePairs.Rd
man/summariseByFeatures.Rd
man/thymus_enh.Rd
man/updateObject-GenomicInteractions-method.Rd
man/viewPoint.Rd
tests/testthat.R
tests/testthat/test_annotation.R
tests/testthat/test_getters.R
tests/testthat/test_import.R
tests/testthat/test_interactiontrack.R
tests/testthat/test_summarystats.R
tests/testthat/test_valid.R
tests/testthat/test_viewpoint.R
vignettes/chiapet_vignette.rmd
vignettes/hic_vignette.Rmd
