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SNPs identification in Human

Dear all,

I would like to ask you a question regarding identification of SNPs in individuals.

I have the exome sequence of around 20 individuals (Human) and I would like to identify the SNPs in the exome of theses persons.

I have never worked with SNPs before so I would be grateful if somebody can give me some hints regarding the identification of SNPs workflow so I can do some studies and I can find my way.

I am particularly interested to know the tools for SNPs identification and the standard workflow.

Thanks a lot,

rna-seq
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updated by GenoMax GenoMax • written by Javad Javad

1 answer

GATK best practices page has comprehensive help for SNP calling. Look on the left side of the page for specific work flows (Germline, somatic, RNAseq). They gloss over alignments but I assume you are aware of how to get those done.

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written by GenoMax GenoMax

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