swong

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swong
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Phoenix, AZ
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  • Actually, let me be more specific. Is the post_recal_data.table only used for generating the before and after plot? In the BQSR tuturial it is not mentioned again. Thanks!
  • Hello, I am also performing BQSR on RNA-seq data for SNP calling. In the BQSR tutorial 2 passes to analyze covariation is performed to generate a recal_data.table and a post_recal_data.table. Which one would I use for the applying recalibration to…
  • It was aligned with STAR. I just tried the same command with a different reference (hs37d5_plusRibo_plusOncoViruses_plusERCC.fa) and it appears to have completed successfully. I think what happened was the person that did the STAR alignment used t…
  • @Geraldine_VdAuwera, thank you. I will do that from now on.
  • Thank you so much pdexheimer!!! It was such a simple mistake. I have been pasting all my commands in Word to keep track of what I did and never thought that will cause any issues.