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.
Release files for pheno-utils 0.4.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
|---|---|---|---|---|
| pheno-utils-0.4.0.tar.gz | 45.8 kB | Without provenance | Details for pheno-utils-0.4.0.tar.gz |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Actions Reset |
|---|---|---|---|---|
| pheno_utils-0.4.0-py3-none-any.whl | Python 3 | none | any | Details for pheno_utils-0.4.0-py3-none-any.whl |
Total release size: 98.3 kB
Release files / pheno-utils-0.4.0.tar.gz
| Download URL | pheno-utils-0.4.0.tar.gz |
|---|---|
| Size | 45.8 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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No |
| Uploaded via |
twine/4.0.2 CPython/3.11.5
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Release files / pheno_utils-0.4.0-py3-none-any.whl
| Download URL | pheno_utils-0.4.0-py3-none-any.whl |
|---|---|
| Size | 52.5 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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BLAKE2b-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.11.5
|
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