genomic-attribute-index Python bindings
The gai package wraps the Rust Genomic Attribute Index builder and indexed reader.
It provides deterministic GAI construction, TBI/CSI-backed exact or prefix
attribute queries, structured records and metadata, and typed exceptions for
stale or corrupt inputs.
from pathlib import Path
import gai
gai.sort(Path("annotations.gff3.gz"), Path("annotations.sorted.gff3"))
source = Path("annotations.gff3.gz")
tbi = Path("annotations.gff3.gz.tbi")
gai.build_index(source, tbi, Path("annotations.gff3.gz.gai"), ["Name"])
records = gai.query_index(source, tbi, Path("annotations.gff3.gz.gai"), "BRCA1")
prefix_records = gai.query_index(
source, tbi, Path("annotations.gff3.gz.gai"), "BRCA", match="prefix"
)
See the repository README for the complete API and development instructions.
1 maintainer
Metadata
1 maintainer
Release files for genomic-attribute-index 0.1.0
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| File | Interpreter | ABI | Platform | Actions Reset |
|---|---|---|---|---|
| genomic_attribute_index-0.1.0-cp310-abi3-manylinux_2_34_x86_64.whl | CPython 3.10 | abi3 | Linux glibc 2.34+ x86-64 | Details for genomic_attribute_index-0.1.0-cp310-abi3-manylinux_2_34_x86_64.whl |
Release files / genomic_attribute_index-0.1.0-cp310-abi3-manylinux_2_34_x86_64.whl
| Download URL | genomic_attribute_index-0.1.0-cp310-abi3-manylinux_2_34_x86_64.whl |
|---|---|
| Size | 1.4 MB |
| Tags | CPython 3.10 Linux glibc 2.34+ x86-64 abi3 |
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