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Bioconductor / AnnotationHub

Client for the Bioconductor AnnotationHub web resource
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Fetching RepeatMasker Files with AnnotationHub #26

Closed mikecuoco closed 2 years ago

mikecuoco commented 2 years ago

I am hoping to integrate your great tool into my repetitive element analysis pipeline, but it seems like some RepeatMasker files (hosted at UCSC) are missing from the cache. Namely, the hg38 repeatmasker file. Would it be possible to add hgdownload.cse.ucsc.edu/goldenpath/hg38/database/rmsk.txt.gz to the cache?

lshep commented 2 years ago

I apologize for the delayed response. AnnotationHub is mosty a Bioconductor user contributed resource. If you would like those included I suggest creating a package, or implementing in the package already in creation, to add the data to the hubs yourself.