CRISPR NGS editing check with HISAT2

Before starting: enable SIMD in your web browser (see Help below).
This tool is for paired-end fastq files (i.e., xxx_R1_001.fastq.gz and xxx_R2_001.fastq.gz). It uses HISAT2 to find big deletions (treated as introns).
Please run the three steps below to obtain the indexed BAMs from a list of FASTQ files.
In the end, you will receive a summary file of indels and all the BAM files to be viewed in IGV.
No spaces are allowed in input file names.

Junli Zhang 2022-05-01

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