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List: bioc-devel
Subject: [Bioc-devel] ensembl 91 gtfs and fasta twobits have been added to AnnotationHub
From: "Shepherd, Lori" <Lori.Shepherd () RoswellPark ! org>
Date: 2017-12-21 14:11:50
Message-ID: BN6PR12MB17312FAB985E05B10A7C8D8EF90D0 () BN6PR12MB1731 ! namprd12 ! prod ! outlook ! com
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Hello all,
The ensembl 91 gtf (converted to GRanges on the fly) and fasta (twobit files)
been added to AnnotationHub and are currently available in Bioc 3.6 (release)
and Bioc3.7 (development)
Bioconductor version 3.6 (BiocInstaller 1.28.0), ?biocLite for help
> library(AnnotationHub)
> hub = AnnotationHub()
snapshotDate(): 2017-10-27
> length(query(hub, c("ensembl", "gtf", "release-91")))
[1] 279
> length(query(hub, c("fasta", "release-91", "twobit")))
[1] 462
Bioconductor version 3.7 (BiocInstaller 1.29.2), ?biocLite for help
> library(AnnotationHub)
> hub = AnnotationHub()
snapshotDate(): 2017-12-20
> length(query(hub, c("ensembl", "gtf", "release-91")))
[1] 279
> length(query(hub, c("fasta", "release-91", "twobit")))
[1] 462
Thank you
Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
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