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Hello! I have another issue. When I run DepthOfCoverage, a user error occurred: "DepthOfCoverage " is not a valid command. My command line is: ./gatk DepthOfCoverage -R TAIR10_genomic.fa -o Sample-1/ -I Sample1_uniq_reads.bam -geneList …
Thanks! @ Sheila
Thank you very much! @ SkyWarrior Could you tell me which tool or setting are used for this conversion?
Thanks! @ SkyWarrior But I need txt format for DepthOfCoverage. Or how can I transfer GFF to the format that is suitable for DepthOfCoverage? The provided gene list must be of the following format: 585 NM_001005484 chr1 + 58953 5…