ArtiCull: Variant Call Refinement for scWGS

Overview

ArtiCull (Artifact Culler) is a variant call refinement algorithm for single-cell whole-genome sequencing (scWGS) data. It enables single nucleotide variant (SNV) based analyses in scWGS, including mutational signature and evolutionary analyses.

Citation

If you use ArtiCull in your research, please cite:

Satas, G., Myers, M. A., McPherson, A., & Shah, S. P. (2025). Inferring active mutational processes in cancer using single cell sequencing and evolutionary constraints. bioRxiv. doi:10.1101/2025.02.24.639589

Support

If you encounter any issues, please open an issue on the ArtiCull GitHub

Contents:

• Installation
  • Cloning the Repository
  • Setting up the Conda Environment
  • Downloading Reference Data Tracks
• Example Usage
  • Example Files
  • Instructions
  • Output
• Command-line Usage
  • Arguments
• Modules
  • articull package
  • articull.classify package
  • articull.train package

ArtiCull is released under the MIT license.

Note

For more information about the MIT license, you can visit the following link: https://opensource.org/licenses/MIT