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Thread Tools |
09-02-2016, 01:58 AM
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#1 |
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Member
Location: France Join Date: Dec 2015
Posts: 39
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Annovar variant filtering
He guys,
I m using convert2annovar.pl to convert vcf to avinput , and in this output i have only 14 variants against more then 1000 variants in the input. Do you know witch filters apply convert2annovar.pl to reduce the number of variant ? Best regards Tristan |
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09-02-2016, 04:31 AM
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#2 |
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PhD Student
Location: Denmark Join Date: Jul 2012
Posts: 164
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I don't think there is a filter involved in the conversion, anyways you should get a .log file that tells you all that annovar did on the dataset.
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09-02-2016, 04:47 AM
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#3 |
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Member
Location: France Join Date: Dec 2015
Posts: 39
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Thank you for the answer. There is not log file during the conversion (with default mode) i think the log file is create during the annotate_variation.pl
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