Skip to content

Conversation

@Nick-Eagles
Copy link
Member

All changes modify read10xVisiumWrapper() to allow finding and importing the reference GTF properly, namely when reference_gtf is not specified. In particular:

  • Correctly find the reference GTF for recent versions of spaceranger, which have a differently organized web_summary.html file
  • Support importing GTF files that are gzipped, which occurs for recent reference genomes (such as those from 2024)

@lcolladotor lcolladotor merged commit 107929e into LieberInstitute:devel Oct 22, 2024
4 checks passed
lcolladotor added a commit that referenced this pull request Oct 22, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

2 participants