Installation and Setup

Installing SIGnature

The SIGnature API is under activate development. The latest development API can be downloaded from GitHub and installed as follows:

git clone https://github.com/genentech/signature.git
cd signature
pip install -e .

Downloading precalculated attributions

Download the cell type-level attributions from Zenodo: https://zenodo.org/communities/signature/

Downloading models

Download the SCimilarity model from Zenodo: https://zenodo.org/records/15729925

Conda environment setup

To install SIGnature in a [Conda](https://docs.conda.io) environment we recommend this environment setup:

Download environment file

name: signature
channels:
  - nvidia
  - pytorch
  - bioconda
  - conda-forge
dependencies:
  - python=3.10
  - ipykernel
  - ipython
  - ipywidgets
  - pip

Followed by installing the signature package, as above.