Dina Tzur
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WARN InbreedingCoeff - InbreedingCoeff will not be calculated at position chr1:40 and possibly subsequent; at least 10 samples must have called genotypes
Answereda) GATK version used: GATK 4 b) Exact command used: gatk HaplotypeCaller -R $(GENOME_file_LAB) -I $(FILE).ao.sort.bam -O $(FILE).raw_variants_help.vcf; \ Hi, I would love to help. I ran the GAT...
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AbstractOpticalDuplicateFinderCommandLineProgram Default READ_NAME_REGEX '<optimized capture of last three': 'separated fields as numeric values>' did not match read name '2hpf_wt_total_SRR870747.42096'.
AnsweredGATK version used: GATK4 I tried to run MarkDuplicates like this: picard MarkDuplicates I = $ (FILE) .sort.bam O = $ (FILE) .MD.bam M = $ (FILE) .MD_matrix.txt; And I got the comment: WARNING 2022...