search

kwcantrell / attention-all-microbes

5 stars 5 forks source link

Provide specific examples of use with QIIME 2 #7

Open wasade opened 9 months ago

wasade commented 9 months ago

...just in the readme for using data from .qza files, doing prediction tasks, and loading back into QIIME 2. Place into README.md. Does not need to be exhaustive, just light examples

wasade commented 9 months ago 
$ conda activate qiime2-2023.9
$ qiime tools export --input-path your_file.qza --output-path foo.biom
$ conda activate amplicon-gpt
$ python amplicon-gpt.py predict --feature-table foo.biom ...
$ conda activate qiime2-2023.9
$ qiime tools import --input-path result.blah --type WhatEverThisIs --output-path result.blah.qza