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Known Issues with Mutect2 GATK4.1

bhanuGandhambhanuGandham Cambridge MAMember, Administrator, Broadie, Moderator admin
edited March 20 in Solutions to Problems
  • Error:
    java.lang.IllegalArgumentException: log10p: Log10-probability must be 0 or less when running FilterMutectCalls(GATK4.1) to Filter VCF results called by Mutect2.
    Solution:
    This error is fixed in master as of March 19th 2019. It will be released in the GATK version 4.1.1.0.
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