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Question: Filter Pileup In Sam Tools
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gravatar for Andrew South
5.8 years ago by
Andrew South • 50
Andrew South • 50 wrote:
NGS: SAM Tools I have generated a simple 6 column pileup from my BAM file but when I try to use the Filter Pileup tool it doesn't recognise my pileup file, I receive the message "History does not include a dataset of the required format / build". Build is hg19. Curiously in the same history I have ran the tool through a workflow without a hitch. Any advice to successfully filter my pileup would be gratefully received. Many thanks, Andy The University of Dundee is a registered Scottish Charity, No: SC015096
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modified 5.7 years ago by Anton Nekrutenko ♦ 1.7k • written 5.8 years ago by Andrew South • 50
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gravatar for Anton Nekrutenko
5.7 years ago by
Anton Nekrutenko ♦ 1.7k
Penn State
Anton Nekrutenko ♦ 1.7k wrote:
Andy: This is an issue we are aware of. To workaround is: - click on a pencil icon within the pileup dat set you nee to filter - middle pane on the interface will change - click on "datatype" tab - select "pileup" in "New datatype" - click save Filter pileup will now recognize you dataset. Thanks and sorry for late reply. anton Anton Nekrutenko http://www.galaxyproject.org
ADD COMMENT • link written 5.7 years ago by Anton Nekrutenko ♦ 1.7k
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