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

Default values for p-value and FDR #364

Closed
amibe1 opened this issue Sep 12, 2023 · 2 comments
Closed

Default values for p-value and FDR #364

amibe1 opened this issue Sep 12, 2023 · 2 comments
Labels
question Further information is requested

Comments

@amibe1
Copy link

amibe1 commented Sep 12, 2023

Description of feature

Hi everyone,

I am trying to find the default values for p-value and FDR when the pipeline does peak calling with MACS2. In the latest version, they are both set to "null", but I think there should be also somewhere reported default values. Anyone has any idea about this?

Thank you in advance!
@JoseEspinosa
Copy link
Member

They don't have any default value, if either macs_fdr or macs_pvalue are not provided by the user then these arguments are not passed to the macs2 command, see here.

@JoseEspinosa JoseEspinosa added question Further information is requested and removed enhancement labels Jul 23, 2024
@JoseEspinosa
Copy link
Member

I will close this issue now for lack of activity, if you have any further questions please feel free to re-open it.

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

No branches or pull requests
2 participants
@JoseEspinosa @amibe1