Introduction | Available request methods | Retrieving Thousand Genomes Project data through GA4GHclient package | Search Variants by genomic location of genes | VariantAnnotation classes | Session Information
Package: GA4GHclient 1.37.0
Welliton Souza
GA4GHclient: A Bioconductor package for accessing GA4GH API data servers
GA4GHclient provides an easy way to access public data servers through Global Alliance for Genomics and Health (GA4GH) genomics API. It provides low-level access to GA4GH API and translates response data into Bioconductor-based class objects.
Authors:
GA4GHclient_1.37.0.tar.gz
GA4GHclient_1.37.0.zip(r-4.7)GA4GHclient_1.37.0.zip(r-4.6)GA4GHclient_1.37.0.zip(r-4.5)
GA4GHclient_1.37.0.tgz(r-4.6-any)GA4GHclient_1.37.0.tgz(r-4.5-any)
GA4GHclient_1.37.0.tar.gz(r-4.7-any)GA4GHclient_1.37.0.tar.gz(r-4.6-any)
GA4GHclient_1.37.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
GA4GHclient/json (API)
| # Install 'GA4GHclient' in R: |
| install.packages('GA4GHclient', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/labbcb/ga4ghclient/issues
On BioConductor:GA4GHclient-1.37.0(bioc 3.24)GA4GHclient-1.36.0(bioc 3.23)
datarepresentationthirdpartyclient
Last updated from:7d0549e51e. Checks:1 NOTE, 7 ERROR, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 295 | ||
| linux-devel-x86_64 | ERROR | 453 | ||
| source / vignettes | OK | 338 | ||
| linux-release-x86_64 | ERROR | 457 | ||
| macos-release-arm64 | ERROR | 338 | ||
| macos-oldrel-arm64 | ERROR | 209 | ||
| windows-devel | ERROR | 345 | ||
| windows-release | ERROR | 362 | ||
| windows-oldrel | ERROR | 330 | ||
| wasm-release | OK | 246 |
Exports:getBiosamplegetCallSetgetDatasetgetExpressionLevelgetFeaturegetFeatureSetgetIndividualgetReadGroupSetgetReferencegetReferenceSetgetRnaQuantificationgetRnaQuantificationSetgetVariantgetVariantAnnotationSetgetVariantSetHGVSnameslistReferenceBasesmakeVCFFromGA4GHResponsemakeVCFHeaderFromGA4GHResponsesearchBiosamplessearchCallSetssearchDatasetssearchExpressionLevelssearchFeaturessearchFeatureSetssearchIndividualssearchPhenotypeAssociationssearchPhenotypeAssociationSetssearchReadGroupSetssearchReadssearchReferencessearchReferenceSetssearchRnaQuantificationssearchRnaQuantificationSetssearchVariantAnnotationssearchVariantAnnotationSetssearchVariantssearchVariantsByGRangessearchVariantSets
Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobBSgenomecachemcigarilloclicodetoolscpp11crayoncurlDBIDelayedArraydplyrfastmapformatRfutile.loggerfutile.optionsgenericsGenomicAlignmentsGenomicFeaturesGenomicRangesgluehttrIRangesjsonliteKEGGRESTlambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigpngR6RCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentsystibbletidyselectutf8VariantAnnotationvctrswithrXMLXVectoryaml
