RESCRIPt-evaluate
History:
Due to dependency conflicts with other branches of rachis (i.e. moshpit & pathogenome), the actions evaluate-cross-validate and evaluate-fit-classifier were removed from recent versions of RESCRIPt. Now, we are returning these actions back to the rachis-qiime2-* branch as a separate plugin: RESCRIPt-evaluate.
Description:
RESCRIPt-evaluate is a supplementary python 3 package for the RESCRIPt plugin that supports cross validation for reference sequence and taxonomy databases. Thus, rescript-evaluate depends upon RESCRIPt, and is only intended for use within the rachis-qiime2-* branch.
To install:
conda activate rachis-qiime2-2026.7
pip install git+https://github.com/mikerobeson/rescript-evaluate
qiime dev refresh-cache
qiime rescript-evaluate --help
Use:
In cases were the RESCRIPt tutorials have not been updated, simply replace rescript with rescript-evaluate in the relevant commands.
That is, change:
qiime rescript evaluate-fit-classifier ...
qiime rescript evaluate-cross-validate ...
to:
qiime rescript-evaluate evaluate-fit-classifier ...
qiime rescript-evaluate evaluate-cross-validate ...
-Happy evaluating! 