Nicole Powell
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Latest activity by Nicole Powell
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Nicole Powell commented,
You can usually find the CRAM files in ‘Your_Project > Bulk > Exome sequences > Exome OQFE CRAM files’ and then they're in the numbered folders along with crai index files. If this isn't visible to...
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Nicole Powell created a post,
Using Batch Files in Swiss Army Knife for Mutect2 Pipeline
Hello, I'm using Mutect2 to call somatic mutations from the WES data. To do this, I have to convert the CRAM files to BAM. #Code to generate batch filesdx generate_batch_inputs --path "project-Gfxv...
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Nicole Powell commented,
The latest version (4.1.0) of Mutectcaller doesn't work in UK Biobank but have you tried changing the version to 4.0.0-1? This has worked for myself and my team, though specifying the interval does...
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