module load java; java -Xmx4G -jar /oak/stanford/groups/akundaje/marinovg/programs/picard-tools-1.99/MarkDuplicates.jar INPUT=K562-ATAC-seq-Rep1-GSM1782764.36mers.unique.bam OUTPUT=K562-ATAC-seq-Rep1-GSM1782764.36mers.unique.dedup.bam METRICS_FILE=K562-ATAC-seq-Rep1-GSM1782764.36mers.unique.dedup.metric VALIDATION_STRINGENCY=LENIENT ASSUME_SORTED=true REMOVE_DUPLICATES=true
module load java; java -Xmx4G -jar /oak/stanford/groups/akundaje/marinovg/programs/picard-tools-1.99/MarkDuplicates.jar INPUT=K562-ATAC-seq-Rep2-GSM1782765.36mers.unique.bam OUTPUT=K562-ATAC-seq-Rep2-GSM1782765.36mers.unique.dedup.bam METRICS_FILE=K562-ATAC-seq-Rep2-GSM1782765.36mers.unique.dedup.metric VALIDATION_STRINGENCY=LENIENT ASSUME_SORTED=true REMOVE_DUPLICATES=true