News:ensembl 87 and 88 gtfs and fasta twobits have been added to AnnotationHub
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shepherl 3.8k
@lshep
Last seen 16 hours ago
United States

Hello all, 

The ensembl 87 and 88 gtfs (converted to GRanges on the fly) have been added to AnnotationHub and are currently available:

> library(AnnotationHub)

> hub = AnnotationHub()
updating metadata: retrieving 1 resource

|======================================================================|
100%
snapshotDate(): 2017-04-04

> length(query(hub, c("ensembl", "gtf", "release-87")))
[1] 218
> length(query(hub, c("ensembl", "gtf", "release-88")))
[1] 218

 

The fasta (twobit files) for release-87 and release-88 have been added to AnnotationHub and are currently available in Bioc3.6 (development) with AnnotationHub (<= 2.9.0): 

 

> library(AnnotationHub)
> hub = AnnotationHub()
updating metadata: retrieving 1 resource

|======================================================================|
100%
snapshotDate(): 2017-04-26

> length(query(hub, c("fasta", "release-87", "twobit")))
[1] 425

> length(query(hub, c("fasta", "release-88", "twobit")))
[1] 425

 

Thank you

bioconductor annotationhub News • 757 views
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