aabatlas
Python client for the antibodyome-atlas, a curated catalog of autoantibody profiling datasets and papers. See schema/README.md in the atlas repo for the data model. Mirrors the R client, AAbAtlas.
Install
Not yet on PyPI. Until then, install from GitHub:
pip install "git+https://github.com/ahcm088/antibodyome-atlas.git#subdirectory=python-package"
Usage
import aabatlas
# browse
ds = aabatlas.list_datasets()
ds[(ds["record_type"] == "DATASET") & (ds["total_sample_n"] > 100)][["atlas_id", "title", "total_sample_n"]]
# one record, with its publication and platforms resolved
rec = aabatlas.get_dataset("AAB-000004")
rec["title"]
rec["publication"]["citation"]
# citation ready to paste into a manuscript
aabatlas.get_citation("AAB-000004")
# download the underlying file
aabatlas.download("AAB-000004")
By default every function reads the latest curated data (ref="main"). Pin a release tag for reproducibility in a publication:
aabatlas.list_datasets(ref="v1.0.0")
1 maintainer
Metadata
1 maintainer
Release files for aabatlas 0.1.0
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