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

SB calculation #77

Open
marissa97 opened this issue Jul 12, 2023 · 1 comment
Open

SB calculation #77

marissa97 opened this issue Jul 12, 2023 · 1 comment

Comments

@marissa97
Copy link

Hallo,

I am analysing vcf files that are produced from miseq. There is strand bias filter used, but i dont know how this SB is calculated. I need to understand this to be able to find the right threshold. Can you please tell me, how the SB is calculated in miseq pipeline? Thankyou!
@jzieve
Copy link
Collaborator

jzieve commented Jul 12, 2023

Hi, I'm not sure this is the correct library for you. This library is designed for converting to GTCs which are the product of an iScan (Microarray) pipeline. I don't know a lot about the SB or how its calculated w.r.t VCFs generated from a MiSeq. I would reach out to [email protected] with your question.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@marissa97 @jzieve