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Use compressed (gzip) fasta and gtf #314

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zeehio opened this issue Apr 2, 2024 · 3 comments
Closed

Use compressed (gzip) fasta and gtf #314

zeehio opened this issue Apr 2, 2024 · 3 comments
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enhancement New feature or request

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@zeehio
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zeehio commented Apr 2, 2024

Description of feature

It would be nice if the scrnaseq pipeline had a similar/compatible genome preparation as the rnaseq pipeline.

I guess we all lack the time to port and implement it avoiding deduplication.

See:

https://github.com/nf-core/rnaseq/blob/master/subworkflows/local/prepare_genome/main.nf
@zeehio zeehio added the enhancement New feature or request label Apr 2, 2024
@grst
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grst commented Apr 2, 2024

Duplicate of #313

@grst grst marked this as a duplicate of #313 Apr 2, 2024
@grst grst closed this as not planned Won't fix, can't repro, duplicate, stale Apr 2, 2024
@grst
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grst commented Apr 2, 2024

Yeah, we should have this here... Do you want to make a PR?

@grst
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grst commented Apr 4, 2024

It's actually already implemented in #276. Will be fixed once this gets merged.

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@zeehio @grst