Package: Rhisat2 1.21.0
Rhisat2: R Wrapper for HISAT2 Aligner
An R interface to the HISAT2 spliced short-read aligner by Kim et al. (2015). The package contains wrapper functions to create a genome index and to perform the read alignment to the generated index.
Authors:
Rhisat2_1.21.0.tar.gz
Rhisat2_1.21.0.zip(r-4.5)Rhisat2_1.21.0.zip(r-4.4)Rhisat2_1.21.0.zip(r-4.3)
Rhisat2_1.21.0.tgz(r-4.4-arm64)Rhisat2_1.21.0.tgz(r-4.4-x86_64)Rhisat2_1.21.0.tgz(r-4.3-arm64)Rhisat2_1.21.0.tgz(r-4.3-x86_64)
Rhisat2_1.21.0.tar.gz(r-4.5-noble)Rhisat2_1.21.0.tar.gz(r-4.4-noble)
Rhisat2.pdf |Rhisat2.html✨
Rhisat2/json (API)
NEWS
# Install 'Rhisat2' in R: |
install.packages('Rhisat2', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/fmicompbio/rhisat2/issues
On BioConductor:Rhisat2-1.21.0(bioc 3.20)Rhisat2-1.20.0(bioc 3.19)
Last updated 2 months agofrom:d4554a0253
Exports:extract_splice_siteshisat2hisat2_buildhisat2_build_usagehisat2_usagehisat2_version
Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbitbit64bitopsblobcachemclicodetoolscpp11crayoncurlDBIdbplyrDelayedArraydigestdplyrfansifastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesgluehmshttrhttr2igraphIRangesjsonliteKEGGRESTlambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigplogrpngprettyunitsprogresspurrrR6rappdirsRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerRUnitS4ArraysS4VectorsSGSeqsnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttxdbmakerUCSC.utilsutf8vctrswithrXMLxml2XVectoryamlzlibbioc
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Extract splice sites from annotation | extract_splice_sites |
Align reads with HISAT2 | hisat2 |
Generate HISAT2 index | hisat2_build |
Print usage of hisat2-build | hisat2_build_usage |
Print usage of hisat2 | hisat2_usage |
Print HISAT2 version | hisat2_version |