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Last data update: 2014.03.03

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Results 1 - 5 of 5 found.
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AnnotationHubData : Transform public data resources into Bioconductor Data Structures

Package: AnnotationHubData
Type: Package
Title: Transform public data resources into Bioconductor Data
Structures
Version: 1.2.2
Authors@R:
c(person("Martin", "Morgan", role="ctb"),
person("Marc", "Carlson", role="ctb"),
person("Dan", "Tenenbaum", role="ctb"),
person("Sonali", "Arora", role="ctb"),
person("Paul", "Shannon", role="ctb"),
person("Bioconductor Package Maintainer",
email="maintainer@bioconductor.org", role="cre"))
Depends: R (>= 3.2.2), methods, S4Vectors (>= 0.7.21), IRanges (>=
2.3.23), GenomicRanges, AnnotationHub
Suggests: RUnit, knitr, RMySQL, BiocStyle, grasp2db
Imports: GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics,
jsonlite, BiocInstaller, httr, AnnotationDbi, Biobase,
Biostrings, DBI, GEOquery, GenomeInfoDb, OrganismDbi, RSQLite,
rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML,
xml2, curl
Description: These recipes convert a wide variety and a growing number of
public bioinformatic data sets into easily-used standard Bioconductor data
structures.
License: Artistic-2.0
LazyLoad: yes
biocViews: DataImport
VignetteBuilder: knitr
Collate: Message-class.R ImportPreparer-class.R
makeAnnotationHubResource.R HubMetadata-class.R
AnnotationHubMetadata-class.R utils.R updateResources.R
ahmToJson.R webAccessFunctions.R makeBioPaxImporter.R
makeChEA.R makedbSNPVCF.R makeEncodeDCC.R
makeEnsemblGtfToGRanges.R makeEnsemblFasta.R
makeEpigenomeRoadmap.R makeGencodeFasta.R makeGenecodeGFF.R
makeGrasp2Db.R makeGSE62944ToExpressionSet.R makeHaemCode.R
makeInparanoid8ToDbs.R makeNCBIToOrgDbs.R
makeRecentOrgPkgsToDbs.R makePazar.R makeRefNet.R
makeUCSCChain.R makeUCSC2Bit.R makeUCSCTracks.R
trackWithAuxiliaryTableToGRangesRecipe.R
UCSCTrackUpdateChecker.R makeEnsemblTwoBit.R
NeedsCompilation: no
Packaged: 2016-05-16 05:39:14 UTC; biocbuild
Author: Martin Morgan [ctb],
Marc Carlson [ctb],
Dan Tenenbaum [ctb],
Sonali Arora [ctb],
Paul Shannon [ctb],
Bioconductor Package Maintainer [cre]
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>

● Data Source: BioConductor
● BiocViews: DataImport
● 0 images, 8 functions, 0 datasets
● Reverse Depends: 2

RefNet : A queryable collection of molecular interactions, from many sources

Package: RefNet
Type: Package
Title: A queryable collection of molecular interactions, from many
sources
Version: 1.8.0
Date: 2016-01-27
Author: Paul Shannon
Maintainer: Paul Shannon <pshannon@systemsbiology.org>
Depends: R (>= 2.15.0), methods, IRanges, PSICQUIC, AnnotationHub,
RCurl, shiny
Suggests: RUnit, BiocStyle, org.Hs.eg.db
Imports: BiocGenerics
Description: Molecular interactions with metadata, some archived, some
dynamically obtained
License: Artistic-2.0
LazyLoad: yes
biocViews: GraphAndNetwork
Packaged: 2016-05-05 04:23:15 UTC; biocbuild
NeedsCompilation: no

● Data Source: BioConductor
● BiocViews: GraphAndNetwork
● 0 images, 7 functions, 0 datasets
● Reverse Depends: 0

ProteomicsAnnotationHubData : Transform public proteomics data resources into Bioconductor Data Structures

Package: ProteomicsAnnotationHubData
Title: Transform public proteomics data resources into Bioconductor
Data Structures
Version: 1.2.2
Authors@R: c(person("Gatto", "Laurent", role=c("aut", "cre"),
email = "lg390@cam.ac.uk"),
person("Sonali", "Arora", role="aut"))
Maintainer: Laurent Gatto <lg390@cam.ac.uk>
Description: These recipes convert a variety and a growing number of
public proteomics data sets into easily-used standard
Bioconductor data structures.
Depends: AnnotationHub (>= 2.1.45), AnnotationHubData,
Imports: mzR (>= 2.3.2), MSnbase, Biostrings, GenomeInfoDb, utils,
Biobase, BiocInstaller, RCurl
Suggests: knitr, BiocStyle, rmarkdown, testthat
biocViews: DataImport, Proteomics
VignetteBuilder: knitr
License: Artistic-2.0
URL: https://github.com/lgatto/ProteomicsAnnotationHubData
BugReports:
https://github.com/lgatto/ProteomicsAnnotationHubData/issues
Collate: ProteomicsAnnotationHubData.R utils.R PAHD.R zzz.R
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-05-16 05:40:00 UTC; biocbuild
Author: Gatto Laurent [aut, cre],
Sonali Arora [aut]

● Data Source: BioConductor
● BiocViews: DataImport, Proteomics
● 0 images, 6 functions, 1 datasets
● Reverse Depends: 0

ExperimentHubData : Add resources to ExperimentHub

Package: ExperimentHubData
Type: Package
Title: Add resources to ExperimentHub
Version: 0.99.11
Authors@R:
c(person("Bioconductor", "Maintainer",
email="maintainer@bioconductor.org", role="cre"))
biocViews: Infrastructure, DataImport, GUI, ThirdPartyClient
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>
Description: Functions to add metadata to ExperimentHub db and
resource files to AWS S3 buckets.
License: Artistic-2.0
Depends: BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData (>=
1.1.4), AnnotationHub
Imports: methods, BiocInstaller, httr, curl
Suggests: GenomeInfoDb, RUnit, knitr, BiocStyle
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2016-02-29 06:49:41 UTC; biocbuild
Author: Bioconductor Maintainer [cre]

● Data Source: BioConductor
● BiocViews: DataImport, GUI, Infrastructure, ThirdPartyClient
● 0 images, 3 functions, 0 datasets
● Reverse Depends: 0

ExperimentHub : Client to access ExperimentHub resources

Package: ExperimentHub
Type: Package
Title: Client to access ExperimentHub resources
Version: 0.99.9
Author: Bioconductor Package Maintainer <maintainer@bioconductor.org>
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>
Description: This package provides a client for the Bioconductor
ExperimentHub web resource. ExperimentHub provides a central location
where curated data from experiments, publications or training courses
can be accessed. Each resource has associated metadata, tags and date
of modification. The client creates and manages a local cache of files
retrieved enabling quick and reproducible access.
License: Artistic-2.0
biocViews: Infrastructure, DataImport, GUI, ThirdPartyClient
Depends: methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.3.17)
Imports: utils, S4Vectors, BiocInstaller
Suggests: knitr, BiocStyle
Enhances: ExperimentHubData
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-04-19 08:33:18 UTC; biocbuild

● Data Source: BioConductor
● BiocViews: DataImport, GUI, Infrastructure, ThirdPartyClient
● 0 images, 2 functions, 0 datasets
● Reverse Depends: 0