Benjamin-Lee / Benjamin-Lee/CodonAdaptationIndex
Documentation Request for Using RSCU param with `python_codon_tables`
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- Jupyter Notebook
- Stars
- 38
- Forks
- 11
- PR merge metrics
- No merged PRs in 30d
Description
Just like it sounds. It'd be great to see how to use the RSCU param in the docs. In particular how to integrate it with the value from `python_codon_tables.get_codons_table()`.
Most of the examples are using a reference genome and I get key errors when I try:
```
RSCU = python_codon_tables.get_codons_table("h_sapiens")
initial_grade = CAI.CAI(initial_seq, RSCUs=RSCU)
```
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Research direction
Start by reading the existing examples that use a reference genome and inspect the `python_codon_tables.get_codons_table()` and `CAI.CAI(..., RSCUs=...)` entry points. Update the documentation with a working integration example and verify that it addresses the reported key errors.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics, documentation
- Issue type
- Documentation
- Difficulty
- 2/5
- Estimated time
- 1-3 hours
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 45/100