Hello, I am trying to get the aligned reads from a bam file for regions specified in a bed file like this:
samtools view -h -b -o SJDE001-1-tumor_region1.bam -L region_1.bed /seq/picard_aggregation/G14865/SJDES001-1/v2/SJDES001-1.bam It runs for a long time and it doesn’t produce the output at the end. Is there a better way to do this?
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