BSgenomes for HIV viruses

BSgenomes for HIV viruses

0

Dear Biostars users,

I wonder if there are BSgenomes available for HIV viruses? I am trying to identify clusters from CLIP-seq data mapping to the HIV genome with wavClusteR. I stuck at one step as below:

`require(BSgenome.Hsapiens.UCSC.hg19)

wavclusters <- filterClusters( clusters = clusters,
highConfSub = highConfSub,
coverage = coverage,
model = model,
genome = Hsapiens,
refBase = “T”,
minWidth = 12)

wavclusters`

I basically want to replace the BSgenome.Hsapiens.UCSC.hg19 with HIV genomes. If there are no available BSgenomes, I guess I have to ask how to create a custom genome in this case. Any input is appreciated.

Thanks ahead,

Xiao


CLIP-seq


RNA-Seq


CLIP-Seq

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