Python package to perform enrichment analysis from omics data.

Navigation

Verified details

These details have been verified by PyPI
Project links
GitHub Statistics
Maintainers
Avatar for PauBM from gravatar.com PauBM

Unverified details

These details have not been verified by PyPI
Project links
Meta
  • License: BSD 3-Clause License
  • Author: Pau Badia i Mompel
  • Maintainer: Pau Badia i Mompel
  • Requires: Python >=3.10
  • Provides-Extra: dev , doc , full , test
Classifiers
Report project as malware

Project description

decoupler - Ensemble of methods to infer enrichment scores

Tests Documentation

Issues Coverage Stars

PyPI Downloads month Downloads all

Conda version Conda downloads

decoupler is a python package containing different enrichment statistical methods to extract biologically driven scores from omics data within a unified framework. This is its faster and memory efficient Python implementation, a deprecated version in R can be found here.

decoupler is part of the scverse® project (website, governance) and is fiscally sponsored by NumFOCUS. If you like scverse® and want to support our mission, please consider making a tax-deductible donation to help the project pay for developer time, professional services, travel, workshops, and a variety of other needs.

Getting started

Please refer to the documentation, in particular, the API documentation.

Installation

You need to have Python 3.10 or newer installed on your system. If you don't have Python installed, we recommend installing uv.

There are several alternative options to install decoupler:

  1. Install the latest stable release from PyPI with minimal dependancies:
pip install decoupler
  1. Install the latest stable full release from PyPI with extra dependancies:
pip install decoupler[full]
  1. Install the latest stable version from conda-forge using mamba or conda (pay attention to the -py suffix at the end):
mamba create -n=dcp conda-forge::decoupler-py
  1. Install the latest development version:
pip install git+https://github.com/scverse/decoupler.git@main

Release notes

See the changelog.

Contact

For questions and help requests, you can reach out in the scverse discourse. If you found a bug, please use the issue tracker.

Citation

Badia-i-Mompel P., Vélez Santiago J., Braunger J., Geiss C., Dimitrov D., Müller-Dott S., Taus P., Dugourd A., Holland C.H., Ramirez Flores R.O. and Saez-Rodriguez J. 2022. decoupleR: Ensemble of computational methods to infer biological activities from omics data. Bioinformatics Advances. https://doi.org/10.1093/bioadv/vbac016

Project details

Verified details

These details have been verified by PyPI
Project links
GitHub Statistics
Maintainers
Avatar for PauBM from gravatar.com PauBM

Unverified details

These details have not been verified by PyPI
Project links
Meta
  • License: BSD 3-Clause License
  • Author: Pau Badia i Mompel
  • Maintainer: Pau Badia i Mompel
  • Requires: Python >=3.10
  • Provides-Extra: dev , doc , full , test
Classifiers

Release history Release notifications | RSS feed

This version

2.1.1

2.1.0

2.0.7

2.0.6

2.0.5

2.0.4

2.0.3

2.0.2

2.0.1

2.0.0

1.9.2

1.9.0

1.8.0

1.7.0

1.6.0

1.5.0

1.4.0

1.3.4

1.3.3

1.3.2

1.3.1

1.3.0

1.2.0

1.1.0

1.0.0

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

decoupler-2.1.1.tar.gz (1.2 MB view details)

Uploaded Source

Built Distribution

If you're not sure about the file name format, learn more about wheel file names.

decoupler-2.1.1-py3-none-any.whl (118.0 kB view details)

Uploaded Python 3

File details

Details for the file decoupler-2.1.1.tar.gz.

File metadata

  • Download URL: decoupler-2.1.1.tar.gz
  • Upload date:
  • Size: 1.2 MB
  • Tags: Source
  • Uploaded using Trusted Publishing? Yes
  • Uploaded via: twine/6.1.0 CPython/3.12.9

File hashes

Hashes for decoupler-2.1.1.tar.gz
Algorithm Hash digest
SHA256 05700321aaf1693512ece7675d181fea2232a0ed94e5ca8f15096d6ad75c7abd
MD5 7ce2d095c3664befc4e9e6647e03d7ce
BLAKE2b-256 619b6b36db6f4f8003a4ce2af01b6baa671f3a965bf6eb873690320699e6da4b

See more details on using hashes here.

Provenance

The following attestation bundles were made for decoupler-2.1.1.tar.gz:

Publisher: release.yaml on scverse/decoupler

Attestations: Values shown here reflect the state when the release was signed and may no longer be current.

File details

Details for the file decoupler-2.1.1-py3-none-any.whl.

File metadata

  • Download URL: decoupler-2.1.1-py3-none-any.whl
  • Upload date:
  • Size: 118.0 kB
  • Tags: Python 3
  • Uploaded using Trusted Publishing? Yes
  • Uploaded via: twine/6.1.0 CPython/3.12.9

File hashes

Hashes for decoupler-2.1.1-py3-none-any.whl
Algorithm Hash digest
SHA256 8cba2534ba8663c7655f9fae014859f6384285bb540dd8bf885a1fbd5fe0fd91
MD5 3161019920f6b782da3fb2913fef3873
BLAKE2b-256 dfcfc546685b6d4053e1391e46533d3a52eee98a92dab247f1c6d28e8a8b0cb2

See more details on using hashes here.

Provenance

The following attestation bundles were made for decoupler-2.1.1-py3-none-any.whl:

Publisher: release.yaml on scverse/decoupler

Attestations: Values shown here reflect the state when the release was signed and may no longer be current.

Supported by

AWS Cloud computing and Security Sponsor Datadog Monitoring Depot Continuous Integration Fastly CDN Google Download Analytics Pingdom Monitoring Sentry Error logging StatusPage Status page