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PostsRecent activity by Wiebe Kooistra Sort by recent activity
ArtificialHaplotypeRG makes variant heterozygousAnswered
Dear GATK, Why do I see the Artificial Haplotype RG add more heterozygosity? In the top part we have the bam file after using HaplotypeCaller with the option --bamfile. In the lower part there is ...
SNP VCF file and bamout not the sameAnswered
Dear GATK, We are trying to retrieve a SNP that is present in the BAM file when using BWA-MEM. When looking at the bamout file we can see that there is a SNP (A->G), but when looking into the VCF f...