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TraceQC: An R package for quality control of CRISPR lineage tracing data

By Jingyuan Hu, Rami Al-Ouran, Xiang Zhang, Zhandong Liu, Hyun-Hwan Jeong

Posted 06 Jun 2020
bioRxiv DOI: 10.1101/2020.06.05.137141

Motivation: The CRISPR-based lineage tracing system is emerging as a powerful new sequencing tool to track cell lineages by marking cells with irreversible genetic mutations. Accurate reconstruction of cell lineages from CRISPR-based data is sensitive to noise. Quality control is critical for filtering out low-quality data points. Yet, existing quality control tools for RNA-seq and DNA-seq do not measure features specific for the CRISPR-linear tracing system. Results: We introduce TraceQC, a quality control package to overcome challenges with measuring the quality of CRISPR-based lineage tracing data and help in interpreting and constructing lineage trees. Availability: The R package is available at https://github.com/LiuzLab/TraceQC. ### Competing Interest Statement The authors have declared no competing interest.

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