Version Info | Background | Set Up | Exploring variants in the TRPV gene family | Examine header data in a vcf file | Convert gene symbols to gene ids | Create gene ranges | Extract variant subsets | Variant location in the gene model | Amino acid coding changes in non-synonymous variants | Exploring Package Content | sessionInfo()
Package: variants 1.37.0
Bioconductor Package Maintainer
variants: Annotating Genomic Variants
Read and write VCF files. Identify structural location of variants and compute amino acid coding changes for non-synonymous variants. Use SIFT and PolyPhen database packages to predict consequence of amino acid coding changes.
Authors:
variants_1.37.0.tar.gz
variants_1.37.0.zip(r-4.7-any)variants_1.37.0.zip(r-4.6-any)variants_1.37.0.zip(r-4.5-any)
variants_1.37.0.tgz(r-4.6-any)variants_1.37.0.tgz(r-4.5-any)
variants_1.37.0.tar.gz(r-4.7-any)variants_1.37.0.tar.gz(r-4.6-any)
variants_1.37.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
variants/json (API)
| # Install 'variants' in R: |
| install.packages('variants', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:variants-1.37.0(workflows 3.24)variants-1.36.0(workflows 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
immunooncologyworkflowannotationworkflowworkflow
Last updated from:03e91df108. Checks:1 NOTE, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 281 | ||
| linux-devel | OK | 414 | ||
| source / vignettes | OK | 417 | ||
| linux-release | OK | 344 | ||
| macos-release | OK | 239 | ||
| macos-oldrel | OK | 198 | ||
| windows-devel | OK | 229 | ||
| windows-release | OK | 225 | ||
| windows-oldrel | OK | 190 | ||
| wasm-release | OK | 223 |
Exports:
Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobBSgenomeBSgenome.Hsapiens.UCSC.hg19cachemcigarilloclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesgluehttrIRangesjsonliteKEGGRESTlambda.rlatticelifecycleMatrixMatrixGenericsmatrixStatsmemoisemimeopensslorg.Hs.eg.dbpkgconfigpngPolyPhen.Hsapiens.dbSNP131R6RCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentsysTxDb.Hsapiens.UCSC.hg19.knownGeneUCSC.utilsVariantAnnotationvctrsXMLXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
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