I have a vcf file containing a list of SNPs from a bacterial isolate which was created by comparing it with a reference strain using GATK. Now I want to map these SNPs to the reference strain's genome in order to find their exact location within and around each gene. I cannot find the right tool to do this. I can see the locations of SNPs with respect to gene in IGV but I cannot retrieve the mapping data from IGV. Please suggest me the right and easy tool for getting this SNP to gene mapping.
Question: SNP to gene mapping into reference genome
5.4 years ago by
sadsam • 0
sadsam • 0 wrote:
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