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Old 02-20-2012, 04:37 AM   #1
paolo.kunder
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Location: Milano, Italy

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Default IGV-dbSNP

Dear all,
I would like to load in IGV last release of human dbSNP, where can I download it?
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Old 02-20-2012, 01:18 PM   #2
Jon_Keats
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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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Old 02-20-2012, 11:15 PM   #3
Jim Robinson
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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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