Bug Bulletin: we have identified a bug that affects indexing when producing gzipped VCFs. This will be fixed in the upcoming 3.2 release; in the meantime you need to reindex gzipped VCFs using Tabix.
Does GATK give a p-value for a SNP/INDEL Call?
Is Strand Bias-Fisher's p-value the only p-value we can obtain for a SNP/INDEL call?
Do we have an option to calculate the actual HWE p-value instead of the HWE proportions?
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