Adding broad peak calling option in MACS3 function?
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enhancement :sparkles:
- Dominant language
- Python
- Stars
- 323
- Forks
- 43
- PR merge metrics
- No merged PRs in 30d
Description
Hi Kai,
First of all, thank you for developing snapATAC2!
I was wondering if we could have the option to call broad peak when using macs3. I see that it's currently not supported.
Thank you!
Zhenkun
Contributor guide
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First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by locating the SnapATAC2 entry point that invokes MACS3 for peak calling and inspect how its current options are exposed. Add a broad-peak option only if the existing integration supports it, and verify that users can select it while retaining the current default behavior.
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Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100