Inquiry About Integrating RBP Binding and Knockdown RNA-seq in Splicekit
Nobody has claimed this yet.
Assessment
- Difficulty
- 5/5
- Estimated time
- Over a week
- Newbie friendliness
- 20/100
- Issue type
- Feature
- Clarity
- Needs clarification
- Activity status
- Stale
- Tech stack
- python
- Domain
- bioinformatics
Research direction
No files, tests, or entry points are named in the issue. Start by checking Splicekit's documented inputs and workflows for CLIP-seq peaks and knockdown RNA-seq; done would require a confirmed support path or a clearly scoped implementation plan.
Written by the indexing model from the issue text.
Description
Dear Splicekit Developers,
I was wondering whether Splicekit supports the integration of RBP binding data (e.g., CLIP-seq peaks) with RNA-seq data from RBP knockdown experiments to investigate differential alternative splicing. Specifically, can Splicekit be used to assess whether RBP binding near splice sites directly influences their usage upon knockdown?
I’m aware that rMAPS2 offers similar functionality, but its source code is not publicly available and appears not to have been updated since 2020.
Thank you in advance for your time and help.
Best regards,
Xiao
- Dominant language
- Python
- Stars
- 23
- Forks
- 4
- Avg merge
- 1m
- Merged PRs (30d)
- 2
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