Compositional Perturbation Autoencoder (CPA)

Navigation

Verified details

These details have been verified by PyPI
Maintainers
Avatar for ArianAmani from gravatar.com ArianAmani Avatar for naghipourfar from gravatar.com naghipourfar

Unverified details

These details have not been verified by PyPI
Project links
Meta
  • License: BSD License (BSD-3-Clause)
  • Author: Mohsen Naghipourfar
  • Requires: Python >=3.7.2, <3.11
Classifiers

Project description

CPA - Compositional Perturbation Autoencoder

What is CPA?

Alt text

CPA is a framework to learn effects of perturbations at the single-cell level. CPA encodes and learns phenotypic drug response across different cell types, doses and drug combinations. CPA allows:

  • Out-of-distribution predictions of unseen drug combinations at various doses and among different cell types.
  • Learn interpretable drug and cell type latent spaces.
  • Estimate dose response curve for each perturbation and their combinations.
  • Access the uncertainty of the estimations of the model.

Usage and installation

See here for documentation and tutorials.

Support and contribute

If you have a question or new architecture or a model that could be integrated into our pipeline, you can post an issue

Acknowledgment

This code is inspired by an early implementatiom by Pierre Boyeau using scvi-tools.

Project details

Verified details

These details have been verified by PyPI
Maintainers
Avatar for ArianAmani from gravatar.com ArianAmani Avatar for naghipourfar from gravatar.com naghipourfar

Unverified details

These details have not been verified by PyPI
Project links
Meta
  • License: BSD License (BSD-3-Clause)
  • Author: Mohsen Naghipourfar
  • Requires: Python >=3.7.2, <3.11
Classifiers

Release history Release notifications | RSS feed

0.8.8

0.8.7

0.8.6

0.8.5

0.8.4

0.8.3

0.8.2

0.8.1

0.8.0

0.7.2

0.7.1

0.7.0

0.6

0.5

0.4.0

0.3.4

0.3.3

0.3.2

0.3.1

0.3.0

0.2.11

0.2.10

0.2.9

0.2.8

0.2.7

This version

0.2.6

0.2.5

0.2.4

0.2.3

0.2.2

0.2.1

0.2.0

0.1.1

0.1.0

0.0.0

Download files

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

Source Distribution

cpa-tools-0.2.6.tar.gz (35.6 kB view details)

Uploaded Source

Built Distribution

cpa_tools-0.2.6-py3-none-any.whl (36.5 kB view details)

Uploaded Python 3

File details

Details for the file cpa-tools-0.2.6.tar.gz.

File metadata

  • Download URL: cpa-tools-0.2.6.tar.gz
  • Upload date:
  • Size: 35.6 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? No
  • Uploaded via: poetry/1.1.13 CPython/3.8.13 Linux/5.4.0-105-generic

File hashes

Hashes for cpa-tools-0.2.6.tar.gz
Algorithm Hash digest
SHA256 5d513bc3ce1c3299432c80b1b7e186e4eefdd6d75d8a4f72bd6cab6862a8b1ed
MD5 6c087a939d2d6dbe82bdf3d22cf08d31
BLAKE2b-256 93aab6b99d7474d4fa64e69b28ca3bfaaab877a42d059490f68c504680af9639

See more details on using hashes here.

File details

Details for the file cpa_tools-0.2.6-py3-none-any.whl.

File metadata

  • Download URL: cpa_tools-0.2.6-py3-none-any.whl
  • Upload date:
  • Size: 36.5 kB
  • Tags: Python 3
  • Uploaded using Trusted Publishing? No
  • Uploaded via: poetry/1.1.13 CPython/3.8.13 Linux/5.4.0-105-generic

File hashes

Hashes for cpa_tools-0.2.6-py3-none-any.whl
Algorithm Hash digest
SHA256 0135fc980220598e10e397c98c9909e29cced3b9716cb1b81efa41e524a87926
MD5 87d3340ae8254579430bf9d5a6e450ce
BLAKE2b-256 1f9f86f3a9cd245c0b20839d4e050a4c78199062c2e37285cd9a8a041a71a3ae

See more details on using hashes here.

Supported by

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