CRISPResso analysis
Yogendra Verma, Hanqin Li, Dirk Hockemeyer, Frank Soldner
Published: 2022-09-06 DOI: 10.17504/protocols.io.b4nxqvfn
Abstract
This protocol describes the process of using CRISPResso to analyze Next Generation Sequencing (NGS) data from CRISPR-targeted, genome-edited samples.
Steps
1.
Install CRISPResso2
2.
In linux, use the following command:
CRISPResso --fastq_r1 R1_reads.fastq.gz –fastq_r2 R2_reads.fastq.gz --amplicon_seq amplicon_seqeunce_here -g sgRNA_sequence_here
3.
Use CRISPRessoBatch command if having many samples
4. Clement K, Rees H, Canver MC, Gehrke JM, Farouni R, Hsu JY, Cole MA, Liu DR, Joung JK, Bauer DE, Pinello L 2019 CRISPResso2 provides accurate and rapid genome editing sequence analysis. Nature biotechnology https://doi.org/10.1038/s41587-019-0032-3
For more details, https://github.com/pinellolab/CRISPResso2
Citation
