Question

Genotype Data And Exome Sequencing Data Sensitivity

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13.2 years ago

Liyf ▴ 300

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 • 3.7k views

ADD COMMENT • link updated 13.2 years ago by Sean Davis 27k • written 13.2 years ago by Liyf ▴ 300

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So which one is more accurate - genotyping or sequencing?

ADD REPLY • link 12.5 years ago by user56 ▴ 300

Ram · Answer 1 · 2011-09-11

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13.2 years ago

Sean Davis 27k

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

ADD COMMENT • link updated 5.2 years ago by Ram 44k • written 13.2 years ago by Sean Davis 27k

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Many thanks. I will have a try.

ADD REPLY • link 13.2 years ago by Liyf ▴ 300

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

ADD REPLY • link 13.2 years ago by Liyf ▴ 300

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

ADD REPLY • link 13.2 years ago by Sean Davis 27k