Question: To varscan mpileup data
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kuick77 • 10 wrote:
HI, I have run the mpileup (process is completed and successful), and was trying to analyse the pile up data using Varscan, but why i didnt see any pileup dataset for me to choose in Varscan analysis tool?
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modified 2.5 years ago
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Jennifer Hillman Jackson ♦ 25k
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2.5 years ago by
kuick77 • 10
Did you make sure that you generated a pileup dataset? The default is VCF.
Yes bryantl and thanks for your reply.
It generated two files, one is vcf , another is log file (both shown in green). I can view the vcf file in the galaxy. But when I proceed to use Varscan, there is no option for me to pick this vcf file.. I am puzzled.