Cosmos: A Position-Resolution Causal Model for Direct and Indirect Effects in Protein Functions
Project description
Cosmos
Update
v1.0: July 15, 2025
- Initial Version of Cosmos
Overview
Cosmos is a Python package for multi-phenotype deep mutational scanning analysis. Specifically, it is suitable for two sequential protein functional phenotypes, one upstream and one downstream - for example, abundance and activity.
Installation
pypi
pip install cosmos-dms
From source
Source code can be found on the GitHub repo pimentellab/cosmos
Cosmos uses Poetry for environment and dependency management.
To install Cosmos, follow these steps:
- Install Poetry (if not already installed). Please follow the guideline on Poetry's official documentation.
- Clone the repository.
git clone https://github.com/pimentellab/cosmos.git
cd cosmos
- Install and activate the environment.
poetry lock
poetry install
Getting started
Check out the vignette/ directory in the source code.
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