Question

cannot download atena annotation for human

0

Entering edit mode

Davide • 0

@acfa65d3

Last seen 6 weeks ago

Italy

Hey there, atena won't download annotation for human

atena • 292 views

ADD COMMENT • link updated 22 hours ago by Robert Castelo ★ 3.4k • written 6 weeks ago by Davide • 0

0

Entering edit mode

That's the error that comes up:

> rmskann <- atena::annotaTEs(genome = "hg38", parsefun = "rmskbasicparser")
Connecting to the AnnotationHub
2 UCSC RepeatMasker tracks found for genome hg38, using the latest one
Downloading annotations
Errore in .local(x, i, j = j, ...) : 'i' must be length 1

ADD REPLY • link 6 weeks ago Davide • 0

score 0 · Answer 1 · 2025-04-11

Hi, sorry for the delay in getting back to you, probably by now you found the solution yourself, but just in case you didn't or anybody else stumbles upon the same problem, you should call the function as follows:

rmskann <- atena::annotaTEs(genome = "hg38", parsefun = rmskbasicparser)

That is, the name of the parse function without quotes. If you still have an error, please read carefully the Bioconductor posting guide to learn how to put the code within the text box of your question, and not as a comment, and how to include your session information.

cheers,

robert.