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

This version

0.2.11

0.2.10

0.2.9

0.2.8

0.2.7

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-0.2.11.tar.gz (35.7 kB view details)

Uploaded Source

Built Distribution

cpa_tools-0.2.11-py3-none-any.whl (36.6 kB view details)

Uploaded Python 3

File details

Details for the file cpa-tools-0.2.11.tar.gz.

File metadata

  • Download URL: cpa-tools-0.2.11.tar.gz
  • Upload date:
  • Size: 35.7 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-0.2.11.tar.gz
Algorithm Hash digest
SHA256 ceb2587c8e93903d4a2899e858981cbbee5fdcd7f7cc827877839541be9c018b
MD5 7e09e2c5b3eb48d915d9183c6e9d4e84
BLAKE2b-256 a33c0d41d29af0e5ca7abdac3e7ee35e6b8d70e5e48ccdbb3c9fb333d5eac464

See more details on using hashes here.

File details

Details for the file cpa_tools-0.2.11-py3-none-any.whl.

File metadata

  • Download URL: cpa_tools-0.2.11-py3-none-any.whl
  • Upload date:
  • Size: 36.6 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-0.2.11-py3-none-any.whl
Algorithm Hash digest
SHA256 06a9f08debdc15a3c88ccd98a23c7692b4bc51d08ed21bab17ca0af127b8ff6c
MD5 9a2cd1e259f32923214ec2572a52e56f
BLAKE2b-256 e95e97b6070010f13949a7488dd1cc50fa0b3fc9294cebd4d6db3dca7c9e171d

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