CRISPulator

CRISPulator is a tool to in silico simulate and design pooled genetic screens. The CRISPulator algorithm uses Monte Carlo method-based approach and relies on CRISPR interference (CRISPRi) or CRISPR nuclease (CRISPRn). CRISPulator supports Pooled screens based on cell growth/survival and fluorescence-activated cell sorting.

Topic

Simulation experiment;Functional genomics

Detail

  • Operation: Modelling and simulation

  • Software interface: Command-line user interface

  • Language: Julia

  • License: Apache-2.0

  • Cost: Free

  • Version name: v0.3.2

  • Credit: The National Science Foundation Graduate Research Fellowship Program, NIH-NIGMS New Innovator Award, Chan Zuckerberg Biohub investigator.

  • Input: -

  • Output: -

  • Contact: Martin Kampmann Martin.Kampmann@ucsf.edu

  • Collection: -

  • Maturity: Emerging

Publications

  • CRISPulator: a discrete simulation tool for pooled genetic screens.
  • Nagy T, Kampmann M. CRISPulator: a discrete simulation tool for pooled genetic screens. BMC Bioinformatics. 2017 Jul 21;18(1):347. doi: 10.1186/s12859-017-1759-9. PMID: 28732459; PMCID: PMC5521134.
  • https://doi.org/10.1186/s12859-017-1759-9
  • PMID: 28732459
  • PMC: PMC5521134

Download and documentation

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