Man pages for ArnaudDroitLab/GenomicOperations
GenomicOperations

collapse_regionsCollapses a list of genomic ranges into a single set of...
combined_regions-GenomicOverlaps-methodReturns the combined regions from a GenomicOverlaps object.
combined_regions-set-GenomicOverlaps-GRanges-methodSet the combined regions from a GenomicOverlaps object.
consensus_indicesDetermines which regions form a "consensus" from all input...
consensus_regionsDetermines which regions form a "consensus" from all input...
coverage_dfReturns a data-frame giving the coverages for all elements of...
coverage_plotPlots the coverages for all elements of a GenomicEnrichment...
enrichment_dfReturns a data-frame giving the enrichments for all elements...
enrichment_plotPlots the enrichments for all elements of a GenomicEnrichment...
GenomicEnrichmentPerforms region enrichment on a set of regions and returns...
GenomicEnrichment-classGenomicEnrichment objects represent the enrichment of a set...
GenomicOverlapsCreate a GenomicOverlaps object.
GenomicOverlaps-classGenomicOverlaps objects represent the overlaps of multiple...
initial_regions-GenomicOverlaps-methodReturns the initial regions from a GenomicOverlaps object.
intersect_indicesCalculate the intersection of a set of elements within a...
intersect_matrixReturns the intersection matrix from a GenomicOverlaps...
intersect_regionsCalculate the intersection of a set of elements within a...
length-GenomicEnrichment-methodReturns the number of elements of a GenomicEnrichment object.
length-GenomicOverlaps-methodReturns the number of elements of a GenomicOverlaps object.
names-GenomicEnrichment-methodReturns the names of the elements of a GenomicEnrichment...
names-GenomicOverlaps-methodReturns the names of the elements of a GenomicOverlaps...
names-set-GenomicEnrichment-character-methodSet names of the elements of a GenomicEnrichment object.
names-set-GenomicOverlaps-character-methodSet names of the elements of a GenomicOverlaps object.
pairwise_overlapCalculate the pairwise overlaps of all factors within a...
plot_vennGenerates a venn diagram from a GenomicOverlaps object.
project_rangesProjects the ranges in query into the ranges in target.
proportion_dfReturns a data-frame giving the coverage proportions for all...
proportion_plotPlots the coverage proportions for all elements of a...
single_region_enrichmentCalculates enrichment ratios for query regions against a...
union_indicesCalculate the union of a set of elements within a...
union_regionsCalculate the union of a set of elements within a...
ArnaudDroitLab/GenomicOperations documentation built on Oct. 19, 2019, 3:20 a.m.