No project description provided
Project description
ZipStrain
ZipStrain is a strain-resolution metagenomics toolkit for profiling mapped reads into nucleotide-count tables and comparing samples at genome and gene resolution.
Documentation:
- Docs: https://OlmLab.github.io/ZipStrain/
- Repository: https://github.com/OlmLab/ZipStrain
Install
Base install:
pip install zipstrain
Experimental matrix utilities with Torch-backed execution:
pip install "zipstrain[matrix]"
Notes:
-
Apple Silicon can use the standard
torchwheel with the MPS backend. -
Linux CUDA installs should replace Torch with the matching CUDA wheel from PyTorch:
pip install "zipstrain[matrix]" pip install --upgrade torch --index-url https://download.pytorch.org/whl/cu124
-
Profiling requires
samtoolsto be installed separately when using pip.
Verify
zipstrain --version
zipstrain test
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Filter files by name, interpreter, ABI, and platform.
If you're not sure about the file name format, learn more about wheel file names.
Copy a direct link to the current filters
File details
Details for the file zipstrain-0.9.15.tar.gz.
File metadata
- Download URL: zipstrain-0.9.15.tar.gz
- Upload date:
- Size: 112.7 kB
- Tags: Source
- Uploaded using Trusted Publishing? Yes
- Uploaded via: twine/6.1.0 CPython/3.13.12
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
39854565a0be8ca09f208903b0d135b5613d75f413a0d3f87ff255842b066fff
|
|
| MD5 |
c876ad4060d1e78498f44132172ec751
|
|
| BLAKE2b-256 |
116921806b3595bafcb8fbacde549db7a7070f039b82bc482fe738ec5dcb2e1f
|
Provenance
The following attestation bundles were made for zipstrain-0.9.15.tar.gz:
Publisher:
pypi-publish.yml on OlmLab/ZipStrain
-
Statement:
-
Statement type:
https://in-toto.io/Statement/v1 -
Predicate type:
https://docs.pypi.org/attestations/publish/v1 -
Subject name:
zipstrain-0.9.15.tar.gz -
Subject digest:
39854565a0be8ca09f208903b0d135b5613d75f413a0d3f87ff255842b066fff - Sigstore transparency entry: 1542620221
- Sigstore integration time:
-
Permalink:
OlmLab/ZipStrain@b2d97cd36d8c299ca5400daa549c25454a64bcea -
Branch / Tag:
refs/tags/v0.9.15 - Owner: https://github.com/OlmLab
-
Access:
public
-
Token Issuer:
https://token.actions.githubusercontent.com -
Runner Environment:
github-hosted -
Publication workflow:
pypi-publish.yml@b2d97cd36d8c299ca5400daa549c25454a64bcea -
Trigger Event:
push
-
Statement type:
File details
Details for the file zipstrain-0.9.15-py3-none-any.whl.
File metadata
- Download URL: zipstrain-0.9.15-py3-none-any.whl
- Upload date:
- Size: 118.2 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? Yes
- Uploaded via: twine/6.1.0 CPython/3.13.12
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
b1e154b9f364d72ab78a4ea77e362f4bc814a48b5e2cfc03ad5f3e4719fe463b
|
|
| MD5 |
4495f59b05ec535d29dcf7b1f057df76
|
|
| BLAKE2b-256 |
ecf36cc1fe8f524f686efd38ef6727431513e82dbbddaf7e625cc6739c161b78
|
Provenance
The following attestation bundles were made for zipstrain-0.9.15-py3-none-any.whl:
Publisher:
pypi-publish.yml on OlmLab/ZipStrain
-
Statement:
-
Statement type:
https://in-toto.io/Statement/v1 -
Predicate type:
https://docs.pypi.org/attestations/publish/v1 -
Subject name:
zipstrain-0.9.15-py3-none-any.whl -
Subject digest:
b1e154b9f364d72ab78a4ea77e362f4bc814a48b5e2cfc03ad5f3e4719fe463b - Sigstore transparency entry: 1542620345
- Sigstore integration time:
-
Permalink:
OlmLab/ZipStrain@b2d97cd36d8c299ca5400daa549c25454a64bcea -
Branch / Tag:
refs/tags/v0.9.15 - Owner: https://github.com/OlmLab
-
Access:
public
-
Token Issuer:
https://token.actions.githubusercontent.com -
Runner Environment:
github-hosted -
Publication workflow:
pypi-publish.yml@b2d97cd36d8c299ca5400daa549c25454a64bcea -
Trigger Event:
push
-
Statement type:
