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

This version

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-0.2.8.tar.gz (35.6 kB view details)

Uploaded Source

Built Distribution

cpa_tools-0.2.8-py3-none-any.whl (36.6 kB view details)

Uploaded Python 3

File details

Details for the file cpa-tools-0.2.8.tar.gz.

File metadata

  • Download URL: cpa-tools-0.2.8.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-0.2.8.tar.gz
Algorithm Hash digest
SHA256 9543bc2ccd45d0b2bd306d7a2a9a28e58464d1eccfc3ad7a41a4a087885907e2
MD5 05fd129bcf109f0ad9a3c7ea3464b294
BLAKE2b-256 d89d59ff378d3a3033efefadba25ed6e54e9f81c3e1513714fdaa5d0fd80f7f2

See more details on using hashes here.

File details

Details for the file cpa_tools-0.2.8-py3-none-any.whl.

File metadata

  • Download URL: cpa_tools-0.2.8-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-0.2.8-py3-none-any.whl
Algorithm Hash digest
SHA256 bc86c7f6d6a4cd4051cf65a298fb0f930d357207c047b9bcd3a318f75e452571
MD5 161a08e0a5a55fa92c2cf21cb07c9a02
BLAKE2b-256 2b481c5734656e2bd26d2bbd8947327ddd8f4ee29d197aa6aa73ca75ca977e1c

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