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Genotype Data And Exome Sequencing Data Sensitivity

I genotyped a sample by Illumina SNP array and I sequenced its exome sequencing data. What is the sensitivity of genotype calling from sequencing data? Is there already perl script?

genotyping exome sequencing
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updated by Sean Davis Sean Davis • written by Liyf • Liyf

So which one is more accurate - genotyping or sequencing?

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written by user56 user56

1 answer

You might want to look at these two tools:

http://vcftools.sourceforge.net/perl_module.html#vcf-compare

http://www.broadinstitute.org/gsa/wiki/index.php/VariantEval

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updated by Ram Ram • written by Sean Davis Sean Davis

Many thanks. I will have a try.

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written by Liyf • Liyf

But I do not found how to download VariantEval, I think it will be fit for me.

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written by Liyf • Liyf

VariantEval is part of GATK. You will need to download the GATK software.

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written by Sean Davis Sean Davis

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