Genome-wide pooled CRISPR-Cas-mediated knockout, activation, and repression screens are powerful tools for functional genomic investigations. Despite their increasing importance, there is currently little guidance on how to design and analyze CRISPR-pooled screens. Here, we provide a review of the commonly used algorithms in the computational analysis of pooled CRISPR screens. We develop a comprehensive simulation framework to benchmark and compare the performance of these algorithms using both synthetic and real datasets. Our findings inform parameter choices of CRISPR screens and provide guidance to researchers on the design and analysis of pooled CRISPR screens.

中文翻译：

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用于分析汇集 CRISPR 屏幕的算法基准

全基因组汇集的 CRISPR-Cas 介导的敲除、激活和抑制筛选是功能基因组研究的强大工具。尽管它们越来越重要，但目前几乎没有关于如何设计和分析 CRISPR 汇集屏幕的指导。在这里，我们回顾了汇集 CRISPR 屏幕的计算分析中常用的算法。我们开发了一个全面的模拟框架，以使用合成数据集和真实数据集对这些算法的性能进行基准测试和比较。我们的研究结果为 CRISPR 筛选的参数选择提供了信息，并为研究人员提供了关于汇集 CRISPR 筛选的设计和分析的指导。