Move Virco report into MiCall pipeline
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- Dominant language
- Python
- Stars
- 21
- Forks
- 11
- Avg merge
- 12h 5m
- Merged PRs (30d)
- 24
Description
Convert the Virco scoring algorithm to use the Stanford ASI rules format, and place it under internal source control.
The current algorithm is implemented here:
fdrive/RESIST/ruby/ckwlib/virco_algorithm.rb
The driver script is fdrive/RESIST/MISEQ/miseq_gen_results.rb.
- convert rules
- compare results to Ruby version
- move key coverage positions into scoring algorithm (separate issue?)
Contributor guide
No contributing guide indexed for this repository
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 reading fdrive/RESIST/ruby/ckwlib/virco_algorithm.rb and the driver fdrive/RESIST/MISEQ/miseq_gen_results.rb to understand the current scoring flow. Convert the rules to Stanford ASI format, compare results with the Ruby implementation, and verify whether key coverage positions belong in this work; done means the converted algorithm is under internal source control and the checklist is resolved.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- ruby
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100