Map single-cell transcriptomes to copy number evolutionary trees. Check out the tutorial for more information.

Installation

$ pip install scatrex

SCATrEx uses JAX to perform automatic differentiation. By default, SCATrEx installs the CPU-only version of JAX, but we strongly recommend the use of GPU acceleration. Please follow the instructions in https://github.com/google/jax#pip-installation-gpu-cuda to install the GPU version of JAX.

Preprint

https://doi.org/10.1101/2021.11.04.467244