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.

Sign up for GitHub

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

Jump to bottom

Prevent pVACvector from clipping Best Peptide #1174

Open
wants to merge 1 commit into
base: pvacvector
Choose a base branch
from
Open

Prevent pVACvector from clipping Best Peptide #1174

wants to merge 1 commit into from

Conversation

susannasiebert
Copy link
Contributor

When running the pvacseq generate_protein_fasta command in combination with an aggregated report as the --input-tsv the output fasta will now contain information about the Best Peptide for mutant fasta entries. This information is then used by pVACvector to prevent clipping into the Best Peptide.

Closes #1164

@susannasiebert susannasiebert linked an issue Jan 7, 2025 that may be closed by this pull request
Prevent pVACvector from clipping epitopes #1164
Open
chrisamiller
chrisamiller approved these changes Jan 7, 2025
View reviewed changes
Copy link
Contributor

@chrisamiller chrisamiller left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

This looks great. I briefly considered whether this best peptide check should be an option, instead of running all the time, but I'm struggling to come up with a scenario where we'd want to turn it off, so as is seems fine. +1

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers

@chrisamiller chrisamiller chrisamiller approved these changes

Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.

Prevent pVACvector from clipping epitopes
2 participants
@susannasiebert @chrisamiller