Recommendation for computational tools to detect gene editing induced INDELs from amplicon NGS data
I am looking for a software program to detect INDELs in zinc-finger nucleases (ZFNs)-edited genes using amplicon sequencing data. The purpose is to evaluate the gene-editing efficiency.
After hours of literature search, I found most of the current tools are designed for CRISPR/Cas9 system, not for ZFNs or TALENs, e.g. CRISPResso2, CRISPR-DAV, CRISPR RGEN Tools, CrispRVariants, amplican, etc.
I was wondering if anyone is aware of tools designed for gene-editing system other than CRISPR/Cas9, or if it’s possible to modify the current CRISPR/Cas9-based tools for amplicon sequencing data obtained from genes edited by other programmable nucleases such as ZFNs.
Thanks in advance!
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