Consider what other minimal pre-processing steps should be included
Open
- Dominant language
- Python
- Stars
- 6
- Forks
- 3
- PR merge metrics
- No merged PRs in 30d
Description
So far only includes flatfield correction (basicpy) and stitching (bigstitcher). Note that stitching with bigstitcher performs intensity rescaling intrinsically. Any other steps to consider?
Contributor guide
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Research direction
Start by reviewing the Snakemake workflow and its existing flatfield correction with basicpy and stitching with BigStitcher. Identify which additional minimal preprocessing steps are appropriate for SPIM data, accounting for BigStitcher's intrinsic intensity rescaling. Done means the preprocessing scope is agreed and the selected steps are specified for implementation.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100