Description:
phenoutils 0.3.9
pheno-utils
pheno-utils is a dynamic Python package developed by Pheno.AI, for
handling our medical datasets. It simplifies data loading, enables
effective merging, and offers intuitive visualization tools.
Install
pip install pheno_utils
How to use
Examples:
data = generate_synthetic_data(n=1000)
hist_ecdf_plots(data=data, col="val1")
age_refplots = GenderAgeRefPlot(data, "val1")
age_refplots.plot()
Setting Up pheno-utils
To use pheno-utils, you must have a config.json file. This file
should be set up according to your filesystem and placed in the
~/.pheno/ directory.
If You’re Working on TRE
For those working in the Trusted Research Environment (TRE), you don’t
need to worry about the config.json file. It will be automatically
generated for you!
If You’re Working with Phenos’ S3 Bucket
If you’re working with Phenos’ S3 bucket, you’ll need to manually create
the config.json file. You can do this by running the following Python
script:
python config_setup/create_default_config.py -d s3://datasets_bucket_name
If you are working on local file system
If you are working on local file system, you’ll need to manually create
the config.json file and locating it under ~/.pheno/ directory.
Please use the config_setup/example_config.json as a template for your
config.json file.
License
For personal and professional use. You cannot resell or redistribute these repositories in their original state.
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