Comments (3)
nbokulich
commented on May 23, 2024
@gregcaporaso Makes sense to me... a lot has changed with this paper and keeping the repo consistent with the eval framework seems to make sense.
On Jul 29, 2014, at 8:38 PM, Greg Caporaso wrote:
I'd like to gut a lot of the code in this repo as much of it is dated, doesn't work anymore, etc. I'm thinking that anything that doesn't directly support the evaluation framework can probably be dropped. Thoughts on this @jairideout and @nbokulich?
Related to #74.
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jairideout
commented on May 23, 2024
👍
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gregcaporaso
commented on May 23, 2024
Excellent, I'll be doing some major gutting and refactoring then.
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Related Issues (20)
- finalize mock community notebooks
- create script to translate a uc file into taxonomy assignments... HOT 1
- prototype specified prior testing for q2-feature-classifier HOT 1
- Fix trueish taxonomies for mock-9 and -10 by fixing taxonomy mapping. HOT 1
- add continuous integration HOT 1
- q2-feature-classifier sweep
- annotate sequence ids in trueish taxonomies notebook HOT 1
- is there a way to collapse labels/rows in the abundance heatmaps? HOT 1
- evaluate_results is slow, should only calculate new results HOT 1
- more unit tests! HOT 1
- evaluate_results: need to link parameters_ids and methods_ids
- How should we handle missing observations in taxonomy assignments during eval? HOT 1
- fungal precision/recall results are failing HOT 6
- Use CART to interpret parameter sweep results in the eval notebooks
- Update the README
- Stop generating space-taking, unnecessary files
- Correlation metrics are not available HOT 4
- missing translations in the matched-sequences-taxonomies.tsv? HOT 1
- Files not in the repository? HOT 1
- Issue with pip install HOT 1
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