module load java; java -Xmx4G -jar /oak/stanford/groups/akundaje/marinovg/programs/picard-tools-1.99/MarkDuplicates.jar INPUT=L4286-HFF_4hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4286-HFF_4hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4286-HFF_4hpi_noPFA_1_Input.hg38-male.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=L4286-HFF_4hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4286-HFF_4hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4286-HFF_4hpi_noPFA_1_Input.merlin.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=L4287-HFF_12hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4287-HFF_12hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4287-HFF_12hpi_noPFA_1_Input.hg38-male.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=L4287-HFF_12hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4287-HFF_12hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4287-HFF_12hpi_noPFA_1_Input.merlin.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=L4288-HFF_24hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4288-HFF_24hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4288-HFF_24hpi_noPFA_1_Input.hg38-male.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=L4288-HFF_24hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4288-HFF_24hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4288-HFF_24hpi_noPFA_1_Input.merlin.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=L4289-HFF_48hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4289-HFF_48hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4289-HFF_48hpi_noPFA_1_Input.hg38-male.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=L4289-HFF_48hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4289-HFF_48hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4289-HFF_48hpi_noPFA_1_Input.merlin.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=L4290-HFF_72hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4290-HFF_72hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4290-HFF_72hpi_noPFA_1_Input.hg38-male.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=L4290-HFF_72hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4290-HFF_72hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4290-HFF_72hpi_noPFA_1_Input.merlin.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=L4291-HFF_96hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4291-HFF_96hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4291-HFF_96hpi_noPFA_1_Input.hg38-male.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=L4291-HFF_96hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4291-HFF_96hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4291-HFF_96hpi_noPFA_1_Input.merlin.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=L4292-HFF_120hpi_noPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4292-HFF_120hpi_noPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4292-HFF_120hpi_noPFA_1_Input.hg38-male.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=L4292-HFF_120hpi_noPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4292-HFF_120hpi_noPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4292-HFF_120hpi_noPFA_1_Input.merlin.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=L4293-HFF_72hpi_1hpiPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4293-HFF_72hpi_1hpiPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4293-HFF_72hpi_1hpiPFA_1_Input.hg38-male.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=L4293-HFF_72hpi_1hpiPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4293-HFF_72hpi_1hpiPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4293-HFF_72hpi_1hpiPFA_1_Input.merlin.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=L4294-HFF_72hpi_48hpiPFA_1_Input.hg38-male.2x36mers.unique.bam OUTPUT=L4294-HFF_72hpi_48hpiPFA_1_Input.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4294-HFF_72hpi_48hpiPFA_1_Input.hg38-male.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=L4294-HFF_72hpi_48hpiPFA_1_Input.merlin.2x36mers.unique.bam OUTPUT=L4294-HFF_72hpi_48hpiPFA_1_Input.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4294-HFF_72hpi_48hpiPFA_1_Input.merlin.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=L4295-HFF_4hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4295-HFF_4hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4295-HFF_4hpi_noPFA_1_CTCF.hg38-male.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=L4295-HFF_4hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4295-HFF_4hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4295-HFF_4hpi_noPFA_1_CTCF.merlin.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=L4296-HFF_12hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4296-HFF_12hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4296-HFF_12hpi_noPFA_1_CTCF.hg38-male.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=L4296-HFF_12hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4296-HFF_12hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4296-HFF_12hpi_noPFA_1_CTCF.merlin.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=L4297-HFF_24hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4297-HFF_24hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4297-HFF_24hpi_noPFA_1_CTCF.hg38-male.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=L4297-HFF_24hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4297-HFF_24hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4297-HFF_24hpi_noPFA_1_CTCF.merlin.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=L4298-HFF_48hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4298-HFF_48hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4298-HFF_48hpi_noPFA_1_CTCF.hg38-male.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=L4298-HFF_48hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4298-HFF_48hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4298-HFF_48hpi_noPFA_1_CTCF.merlin.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=L4299-HFF_72hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4299-HFF_72hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4299-HFF_72hpi_noPFA_1_CTCF.hg38-male.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=L4299-HFF_72hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4299-HFF_72hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4299-HFF_72hpi_noPFA_1_CTCF.merlin.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=L4300-HFF_96hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4300-HFF_96hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4300-HFF_96hpi_noPFA_1_CTCF.hg38-male.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=L4300-HFF_96hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4300-HFF_96hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4300-HFF_96hpi_noPFA_1_CTCF.merlin.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=L4301-HFF_120hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4301-HFF_120hpi_noPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4301-HFF_120hpi_noPFA_1_CTCF.hg38-male.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=L4301-HFF_120hpi_noPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4301-HFF_120hpi_noPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4301-HFF_120hpi_noPFA_1_CTCF.merlin.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=L4302-HFF_72hpi_1hpiPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4302-HFF_72hpi_1hpiPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4302-HFF_72hpi_1hpiPFA_1_CTCF.hg38-male.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=L4302-HFF_72hpi_1hpiPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4302-HFF_72hpi_1hpiPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4302-HFF_72hpi_1hpiPFA_1_CTCF.merlin.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=L4303-HFF_72hpi_48hpiPFA_1_CTCF.hg38-male.2x36mers.unique.bam OUTPUT=L4303-HFF_72hpi_48hpiPFA_1_CTCF.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4303-HFF_72hpi_48hpiPFA_1_CTCF.hg38-male.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=L4303-HFF_72hpi_48hpiPFA_1_CTCF.merlin.2x36mers.unique.bam OUTPUT=L4303-HFF_72hpi_48hpiPFA_1_CTCF.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4303-HFF_72hpi_48hpiPFA_1_CTCF.merlin.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=L4304-HFF_4hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4304-HFF_4hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4304-HFF_4hpi_noPFA_1_H3K27ac.hg38-male.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=L4304-HFF_4hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4304-HFF_4hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4304-HFF_4hpi_noPFA_1_H3K27ac.merlin.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=L4305-HFF_12hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4305-HFF_12hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4305-HFF_12hpi_noPFA_1_H3K27ac.hg38-male.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=L4305-HFF_12hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4305-HFF_12hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4305-HFF_12hpi_noPFA_1_H3K27ac.merlin.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=L4306-HFF_24hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4306-HFF_24hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4306-HFF_24hpi_noPFA_1_H3K27ac.hg38-male.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=L4306-HFF_24hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4306-HFF_24hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4306-HFF_24hpi_noPFA_1_H3K27ac.merlin.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=L4307-HFF_48hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4307-HFF_48hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4307-HFF_48hpi_noPFA_1_H3K27ac.hg38-male.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=L4307-HFF_48hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4307-HFF_48hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4307-HFF_48hpi_noPFA_1_H3K27ac.merlin.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=L4308-HFF_72hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4308-HFF_72hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4308-HFF_72hpi_noPFA_1_H3K27ac.hg38-male.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=L4308-HFF_72hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4308-HFF_72hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4308-HFF_72hpi_noPFA_1_H3K27ac.merlin.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=L4309-HFF_96hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4309-HFF_96hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4309-HFF_96hpi_noPFA_1_H3K27ac.hg38-male.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=L4309-HFF_96hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4309-HFF_96hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4309-HFF_96hpi_noPFA_1_H3K27ac.merlin.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=L4310-HFF_120hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4310-HFF_120hpi_noPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4310-HFF_120hpi_noPFA_1_H3K27ac.hg38-male.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=L4310-HFF_120hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4310-HFF_120hpi_noPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4310-HFF_120hpi_noPFA_1_H3K27ac.merlin.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=L4311-HFF_72hpi_1hpiPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4311-HFF_72hpi_1hpiPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4311-HFF_72hpi_1hpiPFA_1_H3K27ac.hg38-male.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=L4311-HFF_72hpi_1hpiPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4311-HFF_72hpi_1hpiPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4311-HFF_72hpi_1hpiPFA_1_H3K27ac.merlin.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=L4312-HFF_72hpi_48hpiPFA_1_H3K27ac.hg38-male.2x36mers.unique.bam OUTPUT=L4312-HFF_72hpi_48hpiPFA_1_H3K27ac.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4312-HFF_72hpi_48hpiPFA_1_H3K27ac.hg38-male.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=L4312-HFF_72hpi_48hpiPFA_1_H3K27ac.merlin.2x36mers.unique.bam OUTPUT=L4312-HFF_72hpi_48hpiPFA_1_H3K27ac.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4312-HFF_72hpi_48hpiPFA_1_H3K27ac.merlin.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=L4313-HFF_4hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4313-HFF_4hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4313-HFF_4hpi_noPFA_1_4H8.hg38-male.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=L4313-HFF_4hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4313-HFF_4hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4313-HFF_4hpi_noPFA_1_4H8.merlin.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=L4314-HFF_12hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4314-HFF_12hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4314-HFF_12hpi_noPFA_1_4H8.hg38-male.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=L4314-HFF_12hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4314-HFF_12hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4314-HFF_12hpi_noPFA_1_4H8.merlin.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=L4315-HFF_24hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4315-HFF_24hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4315-HFF_24hpi_noPFA_1_4H8.hg38-male.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=L4315-HFF_24hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4315-HFF_24hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4315-HFF_24hpi_noPFA_1_4H8.merlin.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=L4316-HFF_48hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4316-HFF_48hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4316-HFF_48hpi_noPFA_1_4H8.hg38-male.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=L4316-HFF_48hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4316-HFF_48hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4316-HFF_48hpi_noPFA_1_4H8.merlin.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=L4317-HFF_72hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4317-HFF_72hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4317-HFF_72hpi_noPFA_1_4H8.hg38-male.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=L4317-HFF_72hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4317-HFF_72hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4317-HFF_72hpi_noPFA_1_4H8.merlin.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=L4318-HFF_96hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4318-HFF_96hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4318-HFF_96hpi_noPFA_1_4H8.hg38-male.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=L4318-HFF_96hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4318-HFF_96hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4318-HFF_96hpi_noPFA_1_4H8.merlin.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=L4319-HFF_120hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4319-HFF_120hpi_noPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4319-HFF_120hpi_noPFA_1_4H8.hg38-male.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=L4319-HFF_120hpi_noPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4319-HFF_120hpi_noPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4319-HFF_120hpi_noPFA_1_4H8.merlin.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=L4320-HFF_72hpi_1hpiPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4320-HFF_72hpi_1hpiPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4320-HFF_72hpi_1hpiPFA_1_4H8.hg38-male.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=L4320-HFF_72hpi_1hpiPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4320-HFF_72hpi_1hpiPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4320-HFF_72hpi_1hpiPFA_1_4H8.merlin.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=L4321-HFF_72hpi_48hpiPFA_1_4H8.hg38-male.2x36mers.unique.bam OUTPUT=L4321-HFF_72hpi_48hpiPFA_1_4H8.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4321-HFF_72hpi_48hpiPFA_1_4H8.hg38-male.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=L4321-HFF_72hpi_48hpiPFA_1_4H8.merlin.2x36mers.unique.bam OUTPUT=L4321-HFF_72hpi_48hpiPFA_1_4H8.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4321-HFF_72hpi_48hpiPFA_1_4H8.merlin.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=L4322-HFF_4hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4322-HFF_4hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4322-HFF_4hpi_noPFA_1_H3K4me3.hg38-male.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=L4322-HFF_4hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4322-HFF_4hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4322-HFF_4hpi_noPFA_1_H3K4me3.merlin.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=L4323-HFF_12hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4323-HFF_12hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4323-HFF_12hpi_noPFA_1_H3K4me3.hg38-male.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=L4323-HFF_12hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4323-HFF_12hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4323-HFF_12hpi_noPFA_1_H3K4me3.merlin.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=L4324-HFF_24hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4324-HFF_24hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4324-HFF_24hpi_noPFA_1_H3K4me3.hg38-male.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=L4324-HFF_24hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4324-HFF_24hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4324-HFF_24hpi_noPFA_1_H3K4me3.merlin.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=L4325-HFF_72hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4325-HFF_72hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4325-HFF_72hpi_noPFA_1_H3K4me3.hg38-male.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=L4325-HFF_72hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4325-HFF_72hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4325-HFF_72hpi_noPFA_1_H3K4me3.merlin.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=L4326-HFF_96hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4326-HFF_96hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4326-HFF_96hpi_noPFA_1_H3K4me3.hg38-male.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=L4326-HFF_96hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4326-HFF_96hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4326-HFF_96hpi_noPFA_1_H3K4me3.merlin.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=L4327-HFF_120hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4327-HFF_120hpi_noPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4327-HFF_120hpi_noPFA_1_H3K4me3.hg38-male.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=L4327-HFF_120hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4327-HFF_120hpi_noPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4327-HFF_120hpi_noPFA_1_H3K4me3.merlin.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=L4328-HFF_72hpi_1hpiPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4328-HFF_72hpi_1hpiPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4328-HFF_72hpi_1hpiPFA_1_H3K4me3.hg38-male.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=L4328-HFF_72hpi_1hpiPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4328-HFF_72hpi_1hpiPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4328-HFF_72hpi_1hpiPFA_1_H3K4me3.merlin.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=L4329-HFF_72hpi_48hpiPFA_1_H3K4me3.hg38-male.2x36mers.unique.bam OUTPUT=L4329-HFF_72hpi_48hpiPFA_1_H3K4me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4329-HFF_72hpi_48hpiPFA_1_H3K4me3.hg38-male.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=L4329-HFF_72hpi_48hpiPFA_1_H3K4me3.merlin.2x36mers.unique.bam OUTPUT=L4329-HFF_72hpi_48hpiPFA_1_H3K4me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4329-HFF_72hpi_48hpiPFA_1_H3K4me3.merlin.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=L4330-HFF_4hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4330-HFF_4hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4330-HFF_4hpi_noPFA_1_H3K9me3.hg38-male.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=L4330-HFF_4hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4330-HFF_4hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4330-HFF_4hpi_noPFA_1_H3K9me3.merlin.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=L4331-HFF_12hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4331-HFF_12hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4331-HFF_12hpi_noPFA_1_H3K9me3.hg38-male.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=L4331-HFF_12hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4331-HFF_12hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4331-HFF_12hpi_noPFA_1_H3K9me3.merlin.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=L4332-HFF_24hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4332-HFF_24hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4332-HFF_24hpi_noPFA_1_H3K9me3.hg38-male.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=L4332-HFF_24hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4332-HFF_24hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4332-HFF_24hpi_noPFA_1_H3K9me3.merlin.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=L4333-HFF_48hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4333-HFF_48hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4333-HFF_48hpi_noPFA_1_H3K9me3.hg38-male.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=L4333-HFF_48hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4333-HFF_48hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4333-HFF_48hpi_noPFA_1_H3K9me3.merlin.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=L4334-HFF_72hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4334-HFF_72hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4334-HFF_72hpi_noPFA_1_H3K9me3.hg38-male.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=L4334-HFF_72hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4334-HFF_72hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4334-HFF_72hpi_noPFA_1_H3K9me3.merlin.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=L4335-HFF_96hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4335-HFF_96hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4335-HFF_96hpi_noPFA_1_H3K9me3.hg38-male.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=L4335-HFF_96hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4335-HFF_96hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4335-HFF_96hpi_noPFA_1_H3K9me3.merlin.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=L4336-HFF_120hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4336-HFF_120hpi_noPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4336-HFF_120hpi_noPFA_1_H3K9me3.hg38-male.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=L4336-HFF_120hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4336-HFF_120hpi_noPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4336-HFF_120hpi_noPFA_1_H3K9me3.merlin.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=L4337-HFF_72hpi_1hpiPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4337-HFF_72hpi_1hpiPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4337-HFF_72hpi_1hpiPFA_1_H3K9me3.hg38-male.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=L4337-HFF_72hpi_1hpiPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4337-HFF_72hpi_1hpiPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4337-HFF_72hpi_1hpiPFA_1_H3K9me3.merlin.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=L4338-HFF_72hpi_48hpiPFA_1_H3K9me3.hg38-male.2x36mers.unique.bam OUTPUT=L4338-HFF_72hpi_48hpiPFA_1_H3K9me3.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4338-HFF_72hpi_48hpiPFA_1_H3K9me3.hg38-male.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=L4338-HFF_72hpi_48hpiPFA_1_H3K9me3.merlin.2x36mers.unique.bam OUTPUT=L4338-HFF_72hpi_48hpiPFA_1_H3K9me3.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4338-HFF_72hpi_48hpiPFA_1_H3K9me3.merlin.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=L4339-HFF_4hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4339-HFF_4hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4339-HFF_4hpi_noPFA_1_H3K4me1.hg38-male.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=L4339-HFF_4hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4339-HFF_4hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4339-HFF_4hpi_noPFA_1_H3K4me1.merlin.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=L4340-HFF_12hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4340-HFF_12hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4340-HFF_12hpi_noPFA_1_H3K4me1.hg38-male.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=L4340-HFF_12hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4340-HFF_12hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4340-HFF_12hpi_noPFA_1_H3K4me1.merlin.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=L4341-HFF_24hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4341-HFF_24hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4341-HFF_24hpi_noPFA_1_H3K4me1.hg38-male.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=L4341-HFF_24hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4341-HFF_24hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4341-HFF_24hpi_noPFA_1_H3K4me1.merlin.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=L4342-HFF_48hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4342-HFF_48hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4342-HFF_48hpi_noPFA_1_H3K4me1.hg38-male.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=L4342-HFF_48hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4342-HFF_48hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4342-HFF_48hpi_noPFA_1_H3K4me1.merlin.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=L4343-HFF_72hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4343-HFF_72hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4343-HFF_72hpi_noPFA_1_H3K4me1.hg38-male.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=L4343-HFF_72hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4343-HFF_72hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4343-HFF_72hpi_noPFA_1_H3K4me1.merlin.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=L4344-HFF_96hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4344-HFF_96hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4344-HFF_96hpi_noPFA_1_H3K4me1.hg38-male.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=L4344-HFF_96hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4344-HFF_96hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4344-HFF_96hpi_noPFA_1_H3K4me1.merlin.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=L4345-HFF_120hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4345-HFF_120hpi_noPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4345-HFF_120hpi_noPFA_1_H3K4me1.hg38-male.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=L4345-HFF_120hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4345-HFF_120hpi_noPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4345-HFF_120hpi_noPFA_1_H3K4me1.merlin.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=L4346-HFF_72hpi_1hpiPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4346-HFF_72hpi_1hpiPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4346-HFF_72hpi_1hpiPFA_1_H3K4me1.hg38-male.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=L4346-HFF_72hpi_1hpiPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4346-HFF_72hpi_1hpiPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4346-HFF_72hpi_1hpiPFA_1_H3K4me1.merlin.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=L4347-HFF_72hpi_48hpiPFA_1_H3K4me1.hg38-male.2x36mers.unique.bam OUTPUT=L4347-HFF_72hpi_48hpiPFA_1_H3K4me1.hg38-male.2x36mers.unique.dedup.bam METRICS_FILE=L4347-HFF_72hpi_48hpiPFA_1_H3K4me1.hg38-male.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=L4347-HFF_72hpi_48hpiPFA_1_H3K4me1.merlin.2x36mers.unique.bam OUTPUT=L4347-HFF_72hpi_48hpiPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.bam METRICS_FILE=L4347-HFF_72hpi_48hpiPFA_1_H3K4me1.merlin.2x36mers.unique.dedup.metric VALIDATION_STRINGENCY=LENIENT ASSUME_SORTED=true REMOVE_DUPLICATES=true