gwlilabmit/rendseq

Add more optional arguments to command line interface for make_peaks

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#4 opened on Apr 8, 2022

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enhancementgood first issue

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Description

zscores is configured to take almost all of the optional arguments through the command line, but currently make_peaks only takes a few. It would be great to add some of the optional arguments for make_peaks to the argparser so that they can be accessed by users interacting with this module from the command line.

To get a sense of what this looks like check out zscores.py. I was envisioning that we could add some of the optional arguments for both thresh_peaks and hmm_peaks!

Please reach out with questions if you get stuck!

Contributor guide

Research direction
Examine zscores.py to understand the argparse pattern for optional arguments, then add similar arguments to make peaks.py for both thresh peaks and hmm peaks functions.
Tech stack
python
Domain
bioinformaticscli
Issue type
Feature
DifficultyEstimated implementation difficulty for a new contributor, from 1 for very small changes to 5 for expert-level work.
2
Estimated timeA rough time range for an experienced contributor to investigate, implement, test, and prepare a pull request.
1-3 hours
Activity statusHow available the issue appears right now: fresh, active, stale, blocked, or waiting on maintainer input.
Active
ClarityHow clearly the issue explains the expected change, acceptance criteria, and next step.
Clear
Prerequisites
GitPython
Newbie friendlinessA 1-100 score estimating how approachable this issue is for first-time contributors.
75