Can you please provide
a) GATK version used
b) Exact GATK commands used
c) The entire error log if applicable.
We are working on optimization using the GATK4 program.
The only problem is that I can't find a dataset that evaluates how well the optimization works.
Can you tell me where there are public 'truth vcf' files and 'fastq files' specifically from Illumina sequencer ?
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