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Revision as of 02:28, 17 June 2014
, 02:28, 17 June 2014→Did I find interesting variants?
Did you see a variant at the position?
Did you see a variant at the position?
Let's check the sequence data to confirm that the variant really exists
$GC/bin/samtools tview $IN/bams/HG01101.recal.bam $REF/human.g1k.v37.chr22.fa
* Type 'g' to go to a specific position
* Type 22:36662041 to move to the position
* Press arrows to move between positions
* Press 'b' if you want to color by base quality
* Press '?' for more help
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View Screenshot
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[[File:Samtoolstviewindel.png|600px]]
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=== Looking at the INDEL Variant Call File (VCF) ===
=== Looking at the INDEL Variant Call File (VCF) ===
