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

[1.2.0] - PacBio Only #297

Open
DLBPointon opened this issue May 14, 2024 · 5 comments
Open

[1.2.0] - PacBio Only #297

DLBPointon opened this issue May 14, 2024 · 5 comments
Labels
enhancement New feature or request

Comments

@DLBPointon
Copy link
Contributor

Description of feature

There has been a request for a PacBio only run. This is something not currently supported, however, should be simple enough to implement. Related to #115
@DLBPointon DLBPointon added the enhancement New feature or request label May 14, 2024
@DLBPointon
Copy link
Contributor Author

Add line if (params.subworkflows.contains('no_hic') {} to line 246 to treeval.nf

@yumisims
Copy link
Contributor

does this mean no juicer map?

@DLBPointon
Copy link
Contributor Author

does this mean no juicer map?

Yep, no juicer. The requester isn't and won't be generating any HiC at all.

@yumisims
Copy link
Contributor

I think we should use no_juicer instead of no_hic ?

@DLBPointon
Copy link
Contributor Author

We already have a --juicer flag for juicer specifically. --no_hic would turn off Pretext (+ associated pretext accessory files), HiGlass and Juicer.

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

No branches or pull requests
2 participants
@yumisims @DLBPointon