module load java; java -Xmx4G -jar /oak/stanford/groups/akundaje/marinovg/programs/picard-tools-1.99/MarkDuplicates.jar INPUT=L5673-HEK_Input_pre_spin.2x36mers.unique.bam OUTPUT=L5673-HEK_Input_pre_spin.2x36mers.unique.dedup.bam METRICS_FILE=L5673-HEK_Input_pre_spin.2x36mers.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=L5674-HEK_Input_post_spin.2x36mers.unique.bam OUTPUT=L5674-HEK_Input_post_spin.2x36mers.unique.dedup.bam METRICS_FILE=L5674-HEK_Input_post_spin.2x36mers.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=L5675-HEK_Input_H3K27ac.2x36mers.unique.bam OUTPUT=L5675-HEK_Input_H3K27ac.2x36mers.unique.dedup.bam METRICS_FILE=L5675-HEK_Input_H3K27ac.2x36mers.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=L5676-HEK_Input_CTCF.2x36mers.unique.bam OUTPUT=L5676-HEK_Input_CTCF.2x36mers.unique.dedup.bam METRICS_FILE=L5676-HEK_Input_CTCF.2x36mers.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=L5677-HEK_Input_4H8.2x36mers.unique.bam OUTPUT=L5677-HEK_Input_4H8.2x36mers.unique.dedup.bam METRICS_FILE=L5677-HEK_Input_4H8.2x36mers.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=L5678-HEK_Input_H3K4me3.2x36mers.unique.bam OUTPUT=L5678-HEK_Input_H3K4me3.2x36mers.unique.dedup.bam METRICS_FILE=L5678-HEK_Input_H3K4me3.2x36mers.unique.dedup.metric VALIDATION_STRINGENCY=LENIENT ASSUME_SORTED=true REMOVE_DUPLICATES=true