Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

add vsearch all-pairwise-alignments pipeline #36

Open
gregcaporaso opened this issue Dec 5, 2017 · 0 comments
Open

add vsearch all-pairwise-alignments pipeline #36

gregcaporaso opened this issue Dec 5, 2017 · 0 comments

Comments

@gregcaporaso
Copy link
Member

gregcaporaso commented Dec 5, 2017

Improvement Description
Add vsearch all-pairwise-alignments pipeline

Current Behavior
The vsearch command I ran was:

vsearch --allpairs_global queries.fasta --acceptall --id 0.0 --blast6out out.bl6 --alnout out.aln --qmask none

Proposed Behavior
Compute all pairwise alignments for a set of query sequences

Comments

  1. I would see this generating a qzv showing the pairwise alignments and maybe a heatmap-like summary of the pairwise alignment scores, and a qza containing the bl6 output that could be viewed with qiime metadata tabulate.
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

No branches or pull requests

1 participant