cell-tools is a Single-Cell Data Analysis Toolkit with the following areas of focus and development:

1. scRNA-seq data
2. scATAC-seq data
3. Multiomic (mostly scRNA-seq + scATAC-seq) data

Funtion development will likely focus on scATAC-seq given that there are so many python-implemented tools developed already for scRNA-seq. However, wrappers that enable batch-mode QC and pipeline-oriented solutions have been designed and will eventually be added.

Installation

Install the development package:

# (1) clone this repository
git clone https://github.com/mvinyard/cell-tools.git

# (2) install the local project in editable mode
cd ./perturb-tools; pip install -e .