Package: RITAN 1.31.0
Michael Zimmermann
RITAN: Rapid Integration of Term Annotation and Network resources
Tools for comprehensive gene set enrichment and extraction of multi-resource high confidence subnetworks. RITAN facilitates bioinformatic tasks for enabling network biology research.
Authors:
RITAN_1.31.0.tar.gz
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RITAN.pdf |RITAN.html✨
RITAN/json (API)
NEWS
| # Install 'RITAN' in R: |
| install.packages('RITAN', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- vac1.day0vs31.de.genes - This dataset is included as an example in the package:
- vac1.day0vs56.de.genes - This dataset is included as an example in the package:
- vac2.day0vs31.de.genes - This dataset is included as an example in the package:
- vac2.day0vs56.de.genes - This dataset is included as an example in the package:
On BioConductor:RITAN-1.31.0(bioc 3.21)RITAN-1.30.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
qualitycontrolnetworknetworkenrichmentnetworkinferencegenesetenrichmentfunctionalgenomicsgraphandnetwork
Last updated 25 days agofrom:e6e8dc4b54. Checks:OK: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 18 2024 |
| R-4.5-win | WARNING | Nov 18 2024 |
| R-4.5-linux | WARNING | Nov 18 2024 |
| R-4.4-win | WARNING | Nov 18 2024 |
| R-4.4-mac | WARNING | Nov 18 2024 |
| R-4.3-win | WARNING | Nov 18 2024 |
| R-4.3-mac | WARNING | Nov 18 2024 |
Exports:as.graphcheck_any_net_inputcheck_net_inputenrichment_symbolsgeneset_overlapicon_testload_geneset_symbolsnetwork_overlapreadGMTreadSIFresource_reduceshow_active_genesets_histterm_enrichmentterm_enrichment_by_subsetwrite_simple_tablewriteGMT
Dependencies:abindanndataAnnotationDbiAnnotationFilteraskpassassertthatbasiliskbasilisk.utilsBgeeDBBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobbreadcachemcaToolschronclicodetoolscolorspacecpp11crayoncurldata.tableDBIDelayedArraydigestdir.expirydplyrdynamicTreeCutEnsDb.Hsapiens.v86ensembldbevaluateexpmfansifarverfastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2glueGO.dbgplotsgraphgridExtragsubfngtablegtoolshashHDF5ArrayherehighrhttrigraphIRangesisobandjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlatticelazyevallifecyclelinkcommmagrittrMASSMatrixMatrixGenericsmatrixStatsMCLmemoisemgcvmimemunsellnlmeopensslpillarpkgconfigplogrplotrixplyrpngProtGenericsprotopurrrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppTOMLRCurlreshape2restfulrreticulaterhdf5rhdf5filtersRhdf5libRhtslibRITANdatarjsonrlangrprojrootRsamtoolsRSQLitertracklayerS4ArraysS4VectorsscalesSingleCellExperimentsnowSparseArraySparseMsqldfSTRINGdbstringistringrSummarizedExperimentsystibbletidyrtidyselecttopGOUCSC.utilsutf8vctrsviridisLitewithrxfunXMLXVectoryamlzellkonverterzlibbioc
Choosing Resources
Rendered fromchoosing_resources.Rmdusingknitr::rmarkdownon Nov 18 2024.Last update: 2018-08-07
Started: 2017-09-20
Enrichment Vignette
Rendered fromenrichment.Rmdusingknitr::rmarkdownon Nov 18 2024.Last update: 2020-02-18
Started: 2017-03-03
Multi-Tissue Analysis
Rendered frommulti_tissue_analysis.Rmdusingknitr::rmarkdownon Nov 18 2024.Last update: 2018-08-30
Started: 2017-09-20
Network Biology (Induced Subnetwork) Vignette
Rendered fromsubnetworks.Rmdusingknitr::rmarkdownon Nov 18 2024.Last update: 2018-08-13
Started: 2017-03-03
Relationships Among Resources
Rendered fromresource_relationships.Rmdusingknitr::rmarkdownon Nov 18 2024.Last update: 2018-03-09
Started: 2017-09-20
