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. 2017 Dec 1;33(23):3811-3812.
doi: 10.1093/bioinformatics/btx518.

CRISPR-DAV: CRISPR NGS data analysis and visualization pipeline

Xuning Wang  1 , Charles Tilford  1 , Isaac Neuhaus  1 , Gabe Mintier  2 , Qi Guo  3 , John N Feder  2 , Stefan Kirov  1
Affiliations

CRISPR-DAV: CRISPR NGS data analysis and visualization pipeline

Xuning Wang et al. Bioinformatics. .

Abstract

Summary: The simplicity and precision of CRISPR/Cas9 system has brought in a new era of gene editing. Screening for desired clones with CRISPR-mediated genomic edits in a large number of samples is made possible by next generation sequencing (NGS) due to its multiplexing. Here we present CRISPR-DAV (CRISPR Data Analysis and Visualization) pipeline to analyze the CRISPR NGS data in a high throughput manner. In the pipeline, Burrows-Wheeler Aligner and Assembly Based ReAlignment are used for small and large indel detection, and results are presented in a comprehensive set of charts and interactive alignment view.

Availability and implementation: CRISPR-DAV is available at GitHub and Docker Hub repositories: https://github.com/pinetree1/crispr-dav.git and https://hub.docker.com/r/pinetree1/crispr-dav/.

Contact: xuning.wang@bms.com.

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