Package: diffHic 1.39.0
Aaron Lun
diffHic: Differential Analysis of Hi-C Data
Detects differential interactions across biological conditions in a Hi-C experiment. Methods are provided for read alignment and data pre-processing into interaction counts. Statistical analysis is based on edgeR and supports normalization and filtering. Several visualization options are also available.
Authors:
diffHic_1.39.0.tar.gz
diffHic_1.39.0.zip(r-4.5)diffHic_1.39.0.zip(r-4.4)diffHic_1.39.0.zip(r-4.3)
diffHic_1.39.0.tgz(r-4.4-x86_64)diffHic_1.39.0.tgz(r-4.4-arm64)diffHic_1.39.0.tgz(r-4.3-x86_64)diffHic_1.39.0.tgz(r-4.3-arm64)
diffHic_1.39.0.tar.gz(r-4.5-noble)diffHic_1.39.0.tar.gz(r-4.4-noble)
diffHic.pdf |diffHic.html✨
diffHic/json (API)
NEWS
| # Install 'diffHic' in R: |
| install.packages('diffHic', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:diffHic-1.39.0(bioc 3.21)diffHic-1.38.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
multiplecomparisonpreprocessingsequencingcoveragealignmentnormalizationclusteringhic
Last updated 23 days agofrom:778da0758d. Checks:OK: 1 WARNING: 8. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 14 2024 |
| R-4.5-win-x86_64 | WARNING | Nov 14 2024 |
| R-4.5-linux-x86_64 | WARNING | Nov 14 2024 |
| R-4.4-win-x86_64 | WARNING | Nov 14 2024 |
| R-4.4-mac-x86_64 | WARNING | Nov 14 2024 |
| R-4.4-mac-aarch64 | WARNING | Nov 14 2024 |
| R-4.3-win-x86_64 | WARNING | Nov 14 2024 |
| R-4.3-mac-x86_64 | WARNING | Nov 14 2024 |
| R-4.3-mac-aarch64 | WARNING | Nov 14 2024 |
Exports:annotatePairsasDGEListboxPairsclusterPairscompartmentalizeconnectCountsconsolidatePairscorrectedContactcutGenomediClustersdiffHicUsersGuidedomainDirectionsemptyGenomeenrichedPairsextractPatchfilterDiagfilterDirectfilterPeaksfilterTrendedgetAreagetPairDataloadChromosloadDatamarginCountsmatchMarginsmergeCMsmergePairsneighborCountsnormalizeCNVpairParamplotDIplotPlaidpreparePairsprepPseudoPairsprunePairsreadMTX2IntSetreformrotDIrotPlaidsavePairssegmentGenomesquareCountstotalCounts
Dependencies:abindaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitopsBSgenomecodetoolscpp11crayoncsawcurlDelayedArrayedgeRformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangeshttrInteractionSetIRangesjsonlitelambda.rlatticelimmalocfitMatrixMatrixGenericsmatrixStatsmetapodmimeopensslR6RcppRCurlrestfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonRsamtoolsrtracklayerS4ArraysS4VectorssnowSparseArraystatmodSummarizedExperimentsysUCSC.utilsXMLXVectoryamlzlibbioc
