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Thread | Thread Starter | Forum | Replies | Last Post |
dbSNP frequencies | JohnK | Bioinformatics | 2 | 12-05-2013 09:36 AM |
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#1 |
Member
Location: Milano, Italy Join Date: Aug 2011
Posts: 93
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Dear all,
I would like to load in IGV last release of human dbSNP, where can I download it? |
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#2 |
Senior Member
Location: Phoenix, AZ Join Date: Mar 2010
Posts: 279
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Download the latest dbSNP vcf file from NCBI ftp site. Use IGVtools to index, not actually sure you need to, then load the vcf just like you do a bam file
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#3 |
Member
Location: Boston, MA Join Date: May 2009
Posts: 75
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Actually if you download the gzipped (tabix) file and the index (...gz.tbi) you don't need to do anything, just load it. I'm assuming these files are tabix-indexed.
Also, you can actually load it directly by ftp by copy & pasting the URL to "Load from URL" (assuming its tabix indexed, i.e. it has a "tbi" file). Performance will be better if you download it though. Jim |
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