Package: goseq 1.59.0
Federico Marini
goseq: Gene Ontology analyser for RNA-seq and other length biased data
Detects Gene Ontology and/or other user defined categories which are over/under represented in RNA-seq data.
Authors:
goseq_1.59.0.tar.gz
goseq_1.59.0.zip(r-4.5)goseq_1.59.0.zip(r-4.4)goseq_1.59.0.zip(r-4.3)
goseq_1.59.0.tgz(r-4.4-any)goseq_1.59.0.tgz(r-4.3-any)
goseq_1.59.0.tar.gz(r-4.5-noble)goseq_1.59.0.tar.gz(r-4.4-noble)
goseq_1.59.0.tgz(r-4.4-emscripten)goseq_1.59.0.tgz(r-4.3-emscripten)
goseq.pdf |goseq.html✨
goseq/json (API)
NEWS
| # Install 'goseq' in R: |
| install.packages('goseq', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/federicomarini/goseq/issues
- genes - Androgen stimulation of prostate cancer Cell lines.
On BioConductor:goseq-1.59.0(bioc 3.21)goseq-1.58.0(bioc 3.20)
immunooncologysequencinggogeneexpressiontranscriptionrnaseqdifferentialexpressionannotationgenesetenrichmentkeggpathwayssoftware
Last updated 2 months agofrom:87e9f39ded. Checks:OK: 3 NOTE: 2 ERROR: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 29 2024 |
| R-4.5-win | NOTE | Nov 29 2024 |
| R-4.5-linux | NOTE | Nov 29 2024 |
| R-4.4-win | OK | Nov 29 2024 |
| R-4.4-mac | OK | Nov 29 2024 |
| R-4.3-win | ERROR | Nov 29 2024 |
| R-4.3-mac | ERROR | Nov 29 2024 |
Exports:getgogetlengthgoseqmakesplinenullpplotPWFsupportedOrganisms
Dependencies:abindAnnotationDbiaskpassBHBiasedUrnBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbitbit64bitopsblobcachemclicodetoolscpp11crayoncurlDBIdbplyrDelayedArraydigestdplyrfansifastmapfilelockformatRfutile.loggerfutile.optionsgeneLenDataBasegenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesglueGO.dbhmshttrhttr2IRangesjsonliteKEGGRESTlambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemgcvmimenlmeopensslpillarpkgconfigplogrpngprettyunitsprogresspurrrR6rappdirsRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorssnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttxdbmakerUCSC.utilsutf8vctrswithrXMLxml2XVectoryamlzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Androgen stimulation of prostate cancer Cell lines. | genes |
| Fetch GO categories | getgo |
| Retrieves Gene length data | getlength |
| goseq Gene Ontology analyser | goseq |
| Monotonic Spline | makespline |
| Probability Weighting Function | nullp |
| Plot the Probability Weighting Function | plotPWF |
| Prints progress through a loop | pp |
| Supported Organisms | supportedOrganisms |
