hca-anndata-tools
Library for inspection, summarization, and statistics of AnnData h5ad files.
Installation
pip install hca-anndata-tools
Usage
from hca_anndata_tools import get_summary, get_descriptive_stats, locate_files
# Find h5ad files
files = locate_files("/path/to/data")
# Get structural overview
summary = get_summary("/path/to/my_atlas.h5ad")
# Get column statistics
stats = get_descriptive_stats("/path/to/my_atlas.h5ad", columns=["cell_type"], value_counts=True)
API
- locate_files - Find all .h5ad files in a directory
- get_summary - Structural overview: cell/gene counts, columns, embeddings, layers
- get_storage_info - HDF5 compression, chunking, sparse format details
- get_descriptive_stats - Descriptive statistics and value counts for obs/var columns
- view_data - View slices of any attribute (obs, var, X, obsm, uns, etc.)
- plot_embedding - UMAP/PCA scatter plots as base64 PNG
- get_cap_annotations - Inspect CAP cell annotation metadata
1 maintainer
Metadata
1 maintainer
Release files for hca-anndata-tools 0.7.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| hca_anndata_tools-0.7.1.tar.gz | 1.2 MB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| hca_anndata_tools-0.7.1-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 2.3 MB
Release files / hca_anndata_tools-0.7.1.tar.gz
| Download URL | hca_anndata_tools-0.7.1.tar.gz |
|---|---|
| Size | 1.2 MB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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BLAKE2b-256 checksum How to use checksums |
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Yes |
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twine/7.0.0 CPython/3.13.14
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Transparency logRelease files / hca_anndata_tools-0.7.1-py3-none-any.whl
| Download URL | hca_anndata_tools-0.7.1-py3-none-any.whl |
|---|---|
| Size | 1.1 MB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
3a40dae62da2b6e5d02392e0aca35e325ca98e83ee93b485c12e328d0ef3a577
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BLAKE2b-256 checksum How to use checksums |
490d7a7acd518c5721a3201ce61007a64972685d7af3b96436b337e85f285069
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| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/7.0.0 CPython/3.13.14
|
Provenance
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PyPI Publish Attestation
PyPI verified that this artifact, at this checksum, originated from the publisher listed below.
Signed by GitHub Actions, verified by PyPI on Sep 30, 2026.
Transparency log
