minibwa
Python bindings for minibwa, a minimal BWA-style short- and long-read aligner. Built on the Rust minibwa crate via PyO3; the alignment runs in native code with the GIL released.
Install
pip install minibwa
Quick start
import minibwa
# Build an index from a FASTA (writes <prefix>.l2b and <prefix>.mbw), then load it.
minibwa.Index.build("ref.fa", "ref")
idx = minibwa.Index.load("ref")
opts = minibwa.Opts()
for hit in minibwa.map(idx, opts, "read1", "ACGTACGT..."):
print(hit.contig, hit.ref_start, hit.ref_end, hit.strand, hit.cigar_string)
- Paired-end:
minibwa.map_pair(idx, opts, n1, s1, n2, s2) - Batched (higher throughput):
minibwa.map_many(idx, opts, names, seqs) - Methylation (bisulfite): pass
meth=minibwa.Meth.C2T/Meth.G2A(build/load the index withmeth=True)
See the project repository for the full API and documentation.
License
MIT. The package vendors and links minibwa (MIT) and libsais (Apache-2.0); see the repository's THIRD-PARTY.md for full notices.
1 maintainer
Metadata
1 maintainer
Release files for minibwa 0.1.7
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Built distributions (wheels)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| minibwa-0.1.7-cp310-abi3-manylinux_2_28_x86_64.whl | CPython 3.10 | abi3 | Linux glibc 2.28+ x86-64 | Details |
| minibwa-0.1.7-cp310-abi3-manylinux_2_28_aarch64.whl | CPython 3.10 | abi3 | Linux glibc 2.28+ ARM64 | Details |
| minibwa-0.1.7-cp310-abi3-macosx_11_0_arm64.whl | CPython 3.10 | abi3 | macOS 11.0+ ARM64 | Details |
Total release size: 1.1 MB
Release files / minibwa-0.1.7-cp310-abi3-manylinux_2_28_x86_64.whl
| Download URL | minibwa-0.1.7-cp310-abi3-manylinux_2_28_x86_64.whl |
|---|---|
| Size | 378.0 kB |
| Tags | CPython 3.10 Linux glibc 2.28+ x86-64 abi3 |
|
SHA-256 checksum How to use checksums |
d1c34389e8cceb71ff83290e35986a126e38a36cba3ab469829eb4b8731df8cb
|
|
BLAKE2b-256 checksum How to use checksums |
e550a65ada4c4ac93a4fba5385cb6256ccb87848d0a7a7b79f6cb637cc2dd970
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.13.14
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
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 Jul 31, 2026.
Transparency logRelease files / minibwa-0.1.7-cp310-abi3-manylinux_2_28_aarch64.whl
| Download URL | minibwa-0.1.7-cp310-abi3-manylinux_2_28_aarch64.whl |
|---|---|
| Size | 354.5 kB |
| Tags | CPython 3.10 Linux glibc 2.28+ ARM64 abi3 |
|
SHA-256 checksum How to use checksums |
d6711c29a873f1fcb28bdc9d3b2828f8b90ed5d0486f65f8e4b1b8535102b829
|
|
BLAKE2b-256 checksum How to use checksums |
0c980fafb63ea85f96c99ae4b9bbc9726c7f58445b582392faba5a970a5fabd9
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.13.14
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
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 Jul 31, 2026.
Transparency logRelease files / minibwa-0.1.7-cp310-abi3-macosx_11_0_arm64.whl
| Download URL | minibwa-0.1.7-cp310-abi3-macosx_11_0_arm64.whl |
|---|---|
| Size | 340.4 kB |
| Tags | CPython 3.10 abi3 macOS 11.0+ ARM64 |
|
SHA-256 checksum How to use checksums |
806a7525182d486a00f347b1bb6dde453275bdeef4ec9b6184e8875357d51f0b
|
|
BLAKE2b-256 checksum How to use checksums |
1a58e6733d285b4061f0b546b1890c2f4bab850491bfe6800af523c1a28eaeab
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.13.14
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
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 Jul 31, 2026.
Transparency logSecurity for minibwa 0.1.7
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
Full provenance
All 3 files in this release have been uploaded with provenance metadata.
Attestation for minibwa-0.1.7-cp310-abi3-manylinux_2_28_x86_64.whl
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 Jul 31, 2026.
Transparency logA note on package security
PyPI is a repository for distributing packages, not a service for auditing them. While third-party security researchers and our staff do their best to detect and remove malicious packages, PyPI cannot guarantee the quality, security or suitability of any given package.
To learn more about protecting yourself from malicious actors, visit our package security documentation.
