Skip to content

Conversation

glennhickey
Copy link
Collaborator

This PR adds cactus-mafviz, which takes as input a MAF file (ie from cactus-hal2maf) and makes a set of dot and synteny plots using taffy_alignment_plot.py. I wrote it to make a set of sample-to-reference synteny plots for every chromosome for every sample in a human pangenome graph, which was pretty helpful for debugging.

But it's not finished yet, before merging, at minimum it needs:

  • integration into cactus docker / installation (right now script path is hardcoded)
  • interface to pass through options from the cactus-mafviz cli into taffy_alignment_plot.py

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.

1 participant