Tool for SNP calling and annotaion

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mathew

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Join Date: Jan 2011

Posts: 81
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#1

Tool for SNP calling and annotaion

07-25-2012, 07:12 PM

I have paired end seq data and would like to compare three samples for differential SNPs. I guess I need to first call SNPs and then annotate it with known genes. IS there any tool (GUI based???) which need least level of programming skills.
So basically the tool should first be calling SNPs and then perform statistical analysis to call significant or true SNPs and same or another tool may provide annotation. Any pointers will be great

Thanks
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adamyao

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Join Date: Feb 2011

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#2

07-26-2012, 11:57 PM

For annotation tool with GUI, there are some. One of them is VarioWatch (http://genepipe.ncgm.sinica.edu.tw/variowatch). It provides online real time annotation on millions of variants in just a few minutes.
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Morgane_AUS

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Join Date: Aug 2014

Posts: 25
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#3

09-02-2014, 06:47 PM

VarioWatch is for human only, is there a similar program for bacterial genomes ?
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