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

rec_file option #15

Closed
ConstantinV opened this issue Apr 24, 2018 · 2 comments
Closed

rec_file option #15

ConstantinV opened this issue Apr 24, 2018 · 2 comments

Comments

@ConstantinV
Copy link

ConstantinV commented Apr 24, 2018 •
edited

Hello,
I saw a rec_file option in run_snapperdb.py get_the_snps command.
I suppose this file with regions where SNPs can be excluded.
If yes, could you describe the format of the file in details?

Thank you!
@timdallman
Copy link
Contributor

timdallman commented May 1, 2018 •
edited

Hi.
The '-n' option in get_the_snps expects a file with tab separated regions to ignore in the format:
chromosome/contigstart posend pos
e.g.
gi|15829254|ref|NC_002695.1 50 500
gi|15829254|ref|NC_002695.1 1250 1700
.....

@ConstantinV
Copy link
Author

Thank you a lot!

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
@ConstantinV @timdallman