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

container for ngs-qc generator #11

Closed
kelly-sovacool opened this issue Aug 28, 2023 · 1 comment
Closed

container for ngs-qc generator #11

kelly-sovacool opened this issue Aug 28, 2023 · 1 comment

Comments

@kelly-sovacool
Copy link
Member

The old chip-seq workflow points to /data/CCBR_Pipeliner/db/PipeDB/ChIPseq/NGSQC_linux_x86_64 as the binary file to run ngs-qc. The tool's online docs point to a galaxy portal, and it's not clear to me how this was / could be installed as a CLI.
@kelly-sovacool kelly-sovacool mentioned this issue Aug 28, 2023
Open
@kopardev
Copy link
Member

@kelly-sovacool
Use docker "nciccbr/ccbr_ngsqc_0.31:v1"
both ngsqc and NGSQC_linux_x86_64 have been added to PATH

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
@kopardev @kelly-sovacool