Forgot Fasta 'chr21 without chr prefix'#2026
Closed
tetedange13 wants to merge 1 commit into
Closed
Conversation
9 tasks
mashehu
reviewed
Apr 29, 2026
Contributor
There was a problem hiding this comment.
does this file need to be that big? can't we have a subset of it?
Author
There was a problem hiding this comment.
This is simply a copy a "chr21/genome.fasta" but without "chr" prefix
It is hard to subset it without making it less re-usable
Author
There was a problem hiding this comment.
But as this a simple contig renaming, maybe I could achieve that with seqkit replace ? https://bioinf.shenwei.me/seqkit/usage/#replace
There was a problem hiding this comment.
or any other tool used for sequence stuff we have samtools I think which you could use in the setup block of your test
Author
|
I achieve to do that with |
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
3 participants
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
Forgotten file in PR #2021