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Nicola Dick

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Latest activity by Nicola Dick
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    Nicola Dick commented,

    Hello David Benjamin and thank you for your answer. This is interesting, leaving out the line didn't work. However I tried using the hg38 reference (http://hgdownload.soe.ucsc.edu/goldenPath/hg38/b...

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    Nicola Dick created a post,

    FilterAlignmentArtifacts error

    Hey there :)  I'm new and need some advice on this please: I was trying to run FilterAlignmentArtifacts on a vcf file created by FilterMutectCalls and Mutect2 in tumor normal mode. The tumor is TB ...

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    Nicola Dick commented,

    I see! Thank you Bhanu Gandham

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    Nicola Dick commented,

    Hey David! Yep, this made it work. Thanks a lot for your explanation! :)    I have been working with some gatk tools these last days and saw similar, maybe not that trivial things popping up and wo...

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    Nicola Dick commented,

    Hi there! This is the doc I had been trying to work with. It refers to the tutorial I linked in the post above. My problem is, although I installed gatk probably and it runs ( checked it with the c...

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    Nicola Dick created a post,

    GATK doesn't find the MuTect2 tool?

    Hey everyone, I'm an aspiring beginner in the gatk world and would like to start using MuTect2. Super basic commands are not working though and I can't figure out why. Please help me  :)  Many Gree...