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

Exclude consensus sequences with coverage_gte_10_reads <70% from Bjorn processing #66

Open
AmandaBirmingham opened this issue Mar 19, 2021 · 0 comments
Open

Exclude consensus sequences with coverage_gte_10_reads <70% from Bjorn processing #66

AmandaBirmingham opened this issue Mar 19, 2021 · 0 comments
Labels
someday stakeholder request

Comments

@AmandaBirmingham
Copy link
Collaborator

AmandaBirmingham commented Mar 19, 2021 •
edited
Loading

From: "Laurent, Louise"
Date: Thursday, March 18, 2021 at 11:21 AM
Subject: Re: Indel flag and Pangolin calls

Hi All,
A few adjustments to the below, based on Kristian's input on this morning's 10 am call -- pending Katie/Amanda checking with Karthik and Al that these fit what Bjorn does:

[snip]

1.5. The <coverage_gte_10_reads> value will be used to filter out samples that have coverage <70%. Therefore, only samples with coverage >=70% go onto the step # 2. [running Bjorn]

[snip]
@AmandaBirmingham AmandaBirmingham changed the title Exclude consensus sequences with "coverage" <70% from Bjorn processing Exclude consensus sequences with coverage_gte_10_reads <70% from Bjorn processing Mar 19, 2021
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
someday stakeholder request
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@kmfisch @AmandaBirmingham