Description:
phenomicai 0.1.5
phenomic-ai
A CLI package which facilitates computational biologists with a single cell RNA embedding tool
Installation
$ pip install phenomic-ai
Usage
pai embed --tmp-dir [tmp_dir_path] --h5ad-path [path to h5ad file] --tissue-organ [tissue organ]
python3 -m pai embed --tmp-dir [tmp_dir_path] --h5ad-path [path to h5ad file] --tissue-organ [tissue organ]
Commands:
pai main command
embed sub-command invoking the embedding tool
Parameters:
--tmp-dir (temporary direcetory) parameter is the root output directory where the downloaded zip files (zips/) and unzipped directories (results/) will be output
--h5ad-path (h5ad path) parameter is the path to the single cell RNA .h5ad file intended to be uploaded and embeded
--tissue-organ (tissue/organ) parameter specifies the tissue/organ associated wrt. the single cells
Examples
pai embed --tmp-dir /tmp/pai/embed --h5ad-path ./anndata.h5ad --tissue-organ adipose
python3 -m pai embed --tmp-dir /tmp/pai/embed --h5ad-path ./anndata.h5ad --tissue-organ adipose
Help
pai embed --help
python3 -m pai embed --help
Support
Email: sctx@phenomic.ai
License
For personal and professional use. You cannot resell or redistribute these repositories in their original state.
Customer Reviews
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