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01-12-2011, 10:21 AM
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#1 |
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Junior Member
Location: Nottingham Join Date: Oct 2010
Posts: 9
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Softwear to visualise snps called from NGS
I used DeepSeq to identify novel SNPs in targeted amplicon regions. I have annotated these SNPs using variant classifier. However, I am yet to find a tool that can graphically display these SNPs in their genomic context. I was wondering if their is a stand alone tool, or perhaps something as part of a pipeline programme i can tap into? Anyone know of any?
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01-13-2011, 02:07 AM
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#2 |
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Member
Location: Planet Earth Join Date: Jan 2011
Posts: 26
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You can use custom tracks in the UCSC Genome Browser. http://genome.ucsc.edu/index.html
You can also setup a local installation of this, if you prefer this. |
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01-13-2011, 11:56 AM
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#3 |
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Peter (Biopython etc)
Location: Dundee, Scotland, UK Join Date: Jul 2009
Posts: 1,543
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Not my field, but is Flapjack relevant?
http://bioinf.scri.ac.uk/flapjack/ |
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01-14-2011, 12:25 PM
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#4 |
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Member
Location: Canada Join Date: Nov 2008
Posts: 37
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I really like the Integrative Genomics Browser lately:
http://www.broadinstitute.org/software/igv/ |
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| Tags |
| genome, image, snp, visualization |
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