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Old 01-19-2017, 03:26 PM   #1
capricy
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Location: 63130

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Default SNP enrichment test along the genome

Hello, there,

I have SNP annotation along the genomic DNA. By visual inspection, I can tell that some chromosomal region tends to have more SNPs than the other. I wonder if there is a tool to statistically analysis such enrichment along the genome?

For example, I can calculate the number of SNPs along each 5k genome region, and also the average number of SNPs long the whole genome (total number/length of genome), how would I find the genomic regions that have significant higher number of SNPs when compared with this average SNP number?

Thanks a lot!

C.
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Old 01-20-2017, 05:18 AM   #2
yzzhang
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Default

fisher exact test maybe fit this.
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