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Hello GATK, I am trying to find known variants in a file with a name like vcf_dbSNP135 Where can I download this file? It is for use in this command: java -Xmx4g -Djava.io.tmpdir=temp -jar GenomeAnalysisTK.jar -T BaseRecalibrator -nct 4 -R hg19.fa…
I got this huge error: picard.sam.FixMateInformation INPUT=[outBAM_sorted_marked_realigned.bam] OUTPUT=outBAM_sorted_marked_realigned_fixed.bam SORT_ORDER=coordinate VALIDATION_STRINGENCY=LENIENT CREATE_INDEX=true ASSUME_SORTED=false ADD_MATE_CI…
" (named hg vs b, published by different groups [need to look up details]" Please do so before publishing online.