Avatar

Enrico Cocchi

Follow
  • Total activity 33
  • Last activity
  • Member since
  • Following 0 users
  • Followed by 0 users
  • Votes 1
  • Subscriptions 14

Posts

Recent activity by Enrico Cocchi Sort by recent activity Recent activity Votes

  • Mutect2 PoN - GenomicsDBImport creates empty DB

    Answered
    1. Community
    2. Somatic

    I am trying to follow GATK 4.2.0 best-practice guidelines for Mutect2 PoN creation. I called variants in my samples as recommended with: gatk Mutect2 \-R ${REF} \-L ${EXOME_INPUT_INTERVALS} \-I ${...

    • Enrico Cocchi
    • Edited
    • 4 followers
    • 15 comments
    • 0 votes

  • GATK Mutect2 tumor vs. normal sample

    Answered
    1. Community
    2. Documentation Questions

    a) How do I compared somatic variants called through a PoN file with the latest best-practive-guidelines between a normal-sample and a tumor-sample in order to know which one are characteristics of...

    • Enrico Cocchi
    • 4 followers
    • 4 comments
    • 0 votes

  • Mutect2 missing variant

    1. Community
    2. Somatic

    Hi, I am using GATK 4.1.2.0 and I noticed a strange behavior by Mutect2. The variant 13-33329989-TGTCTC-T is called if the BED file contains: 13 33329959 33330170 but not if it contains: 13 3...

    • Enrico Cocchi
    • 3 followers
    • 3 comments
    • 0 votes