The transcriptome datasets switched to 2Bit files. We do provide the updated
TwoBitFiles in the annotatiuonhub (again we have not yet added 95 but do have
94).
> query(hub, c("ensembl", "elegans", "release-94", "2bit"))
AnnotationHub with 4 records
# snapshotDate(): 2019-01-14
# $dataprovider
Thank you for your interest.
Feel free to email me off the devel list if you have any more general questions
as you start developing your experimentHub package as I am the core team member
responsible in assistance.
The GTF files in annotationhub are a specialized case and because of the amou
Hello,
Thank you for your helpful answer Lori.
I will create an experimentHub package that will contain one fastq file.
I also needed to access to gtf and transcriptome cdna files from ensembl.
In your website I read that publicly available data like gtf and
transcriptome.fa files should not be
You could see if there is any existing data already in Bioconductor for use
with your package. That would be preferable.
http://bioconductor.org/packages/release/BiocViews.html#___Software
searching for fastq - you could see what data ShortRead, seqTools, and
FastqCleaner
similarly you cou
