picard sortvcf

when I used GATK tool RealignerTargetCreator to realign my bam file to reference indel vcf files, it reports error that the two files have incompatible contigs. So I used picard ReorderSam and SortVcf to sort bam file and vcf file respectively. The SortVcf command reports error that "SAM dictionaries are not the same". How can I solve this error? thank you

Answers

Sign In or Register to comment.