Allele frequencies for indels and edits
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enhancement
feature-request
- Dominant language
- Nextflow
- Stars
- 63
- Forks
- 39
- PR merge metrics
- No merged PRs in 30d
Description
Description of feature
For base editing/prime editing experiments, It would be nice to view the most common alleles and their frequencies. Would it be possible to include a table or a plot that includes the top alleles for edits and indels together? There is a plot called ***_delAlleles_plot.png, but that only shows the top alleles that include a deletion.
Contributor guide
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 how the existing ***_delAlleles_plot.png is generated and where allele frequencies are assembled in the pipeline. Define the combined output for edits and indels, including the top alleles and their frequencies, then validate it with suitable base-editing or prime-editing results.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100