Changes between Version 50 and Version 51 of SOP/CallingVariantsRNAseq


Ignore:
Timestamp:
09/05/17 14:07:14 (8 years ago)
Author:
krichard
Comment:

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  • SOP/CallingVariantsRNAseq

    v50 v51  
    9898{{{java -jar /usr/local/gatk3/GenomeAnalysisTK.jar -T VariantFiltration -R /path/to/genome/fasta -V  Variants_called.vcf -window 35 -cluster 3 -filterName Filter -filter "QD < 2.0" -filterName Filter -filter "FS > 30.0" -o Filtered_variants_called.vcf}}}
    9999
     100
     101'''Predict the effects of called variants [http://barcwiki.wi.mit.edu/wiki/SOPs/vcf Predict variant effect].'''