AnnotationHubData: Transform public data resources into Bioconductor Data Structures

These recipes convert a wide variety and a growing number of public bioinformatic data sets into easily-used standard Bioconductor data structures.

AuthorMartin Morgan [ctb], Marc Carlson [ctb], Dan Tenenbaum [ctb], Sonali Arora [ctb], Paul Shannon [ctb], Bioconductor Package Maintainer [cre]
Date of publicationNone
MaintainerBioconductor Package Maintainer <maintainer@bioconductor.org>
LicenseArtistic-2.0
Version1.4.1

View on Bioconductor

Files in this package

AnnotationHubData/DESCRIPTION
AnnotationHubData/NAMESPACE
AnnotationHubData/NEWS
AnnotationHubData/R
AnnotationHubData/R/AnnotationHubMetadata-class.R AnnotationHubData/R/HubMetadata-class.R AnnotationHubData/R/ImportPreparer-class.R AnnotationHubData/R/Message-class.R AnnotationHubData/R/UCSCTrackUpdateChecker.R AnnotationHubData/R/ahmToJson.R AnnotationHubData/R/makeAnnotationHubResource.R AnnotationHubData/R/makeBioPaxImporter.R AnnotationHubData/R/makeChEA.R AnnotationHubData/R/makeEncodeDCC.R AnnotationHubData/R/makeEnsemblFasta.R AnnotationHubData/R/makeEnsemblGtfToGRanges.R AnnotationHubData/R/makeEnsemblTwoBit.R AnnotationHubData/R/makeEpigenomeRoadmap.R AnnotationHubData/R/makeGencodeFasta.R AnnotationHubData/R/makeGencodeGFF.R AnnotationHubData/R/makeGrasp2Db.R AnnotationHubData/R/makeHaemCode.R AnnotationHubData/R/makeInparanoid8ToDbs.R AnnotationHubData/R/makeNCBIToOrgDbs.R AnnotationHubData/R/makePazar.R AnnotationHubData/R/makeRecentOrgPkgsToDbs.R AnnotationHubData/R/makeRefNet.R AnnotationHubData/R/makeUCSC2Bit.R AnnotationHubData/R/makeUCSCChain.R AnnotationHubData/R/makeUCSCTracks.R AnnotationHubData/R/makedbSNPVCF.R AnnotationHubData/R/readMetadataFromCsv.R AnnotationHubData/R/trackWithAuxiliaryTableToGRangesRecipe.R AnnotationHubData/R/updateResources.R AnnotationHubData/R/utils.R AnnotationHubData/R/webAccessFunctions.R
AnnotationHubData/appveyor.yml
AnnotationHubData/build
AnnotationHubData/build/vignette.rds
AnnotationHubData/inst
AnnotationHubData/inst/doc
AnnotationHubData/inst/doc/IntroductionToAnnotationHubData.R
AnnotationHubData/inst/doc/IntroductionToAnnotationHubData.Rmd
AnnotationHubData/inst/doc/IntroductionToAnnotationHubData.html
AnnotationHubData/inst/extdata
AnnotationHubData/inst/extdata/annotation_haemcode.tsv
AnnotationHubData/inst/extdata/badUCSCTracks
AnnotationHubData/inst/extdata/badUCSCTracks/allBadTracks.rda
AnnotationHubData/inst/extdata/badUCSCTracks/allPossibleTracks.rda
AnnotationHubData/inst/extdata/badUCSCTracks/genomeTrackTable.Rda
AnnotationHubData/inst/extdata/haemCodeFileList.txt
AnnotationHubData/inst/extdata/inpDrosPsuedo.rda
AnnotationHubData/inst/makefile
AnnotationHubData/inst/scripts
AnnotationHubData/inst/scripts/communityContributions.R
AnnotationHubData/inst/scripts/createJsonForTesting.R
AnnotationHubData/inst/scripts/oldVignettes
AnnotationHubData/inst/scripts/oldVignettes/AnnotationHubData.Rmd
AnnotationHubData/inst/scripts/oldVignettes/AnnotationHubRecipes.Rmd
AnnotationHubData/inst/unitTests
AnnotationHubData/inst/unitTests/cases
AnnotationHubData/inst/unitTests/cases/encodeDCCMetadata
AnnotationHubData/inst/unitTests/cases/encodeDCCMetadata/downloads
AnnotationHubData/inst/unitTests/cases/encodeDCCMetadata/tbl.parsedEncodeMetadata.RData
AnnotationHubData/inst/unitTests/cases/encodeDCCMetadata/wgEncodeAffyRnaChip.info
AnnotationHubData/inst/unitTests/cases/encodeDCCMetadata/wgEncodeAwgDnaseUniform.info
AnnotationHubData/inst/unitTests/test_AnnotationHubConstructor.R
AnnotationHubData/inst/unitTests/test_ImportPreparer-class.R
AnnotationHubData/inst/unitTests/test_recipe.R
AnnotationHubData/inst/unitTests/test_webAccessFunctions.R
AnnotationHubData/man
AnnotationHubData/man/AnnotationHubData-package.Rd AnnotationHubData/man/AnnotationHubMetadata-class.Rd AnnotationHubData/man/ImportPreparer-class.Rd AnnotationHubData/man/flog.Rd AnnotationHubData/man/makeAnnotationHubMetadata.Rd AnnotationHubData/man/makeEnsemblFasta.Rd AnnotationHubData/man/makeGencodeFasta.Rd AnnotationHubData/man/readMetadataFromCsv.Rd AnnotationHubData/man/updateResources.Rd AnnotationHubData/man/upload_to_S3.Rd
AnnotationHubData/tests
AnnotationHubData/tests/AnnotationHubData_unit_tests.R
AnnotationHubData/vignettes
AnnotationHubData/vignettes/IntroductionToAnnotationHubData.Rmd

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