module load java; java -Xmx4G -jar /oak/stanford/groups/akundaje/marinovg/programs/picard-tools-1.99/MarkDuplicates.jar INPUT=L3752-Hanbang_Zhan_U-HP_NRSF.2x36mers.unique.bam OUTPUT=L3752-Hanbang_Zhan_U-HP_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3752-Hanbang_Zhan_U-HP_NRSF.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=L3753-Hanbang_Zhan_U-HP_NRSF.2x36mers.unique.bam OUTPUT=L3753-Hanbang_Zhan_U-HP_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3753-Hanbang_Zhan_U-HP_NRSF.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=L3754-Hanbang_Zhan_U-O_NRSF.2x36mers.unique.bam OUTPUT=L3754-Hanbang_Zhan_U-O_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3754-Hanbang_Zhan_U-O_NRSF.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=L3755-Hanbang_Zhan_U-O_NRSF.2x36mers.unique.bam OUTPUT=L3755-Hanbang_Zhan_U-O_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3755-Hanbang_Zhan_U-O_NRSF.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=L3756-Hanbang_Zhan_B-HP_NRSF.2x36mers.unique.bam OUTPUT=L3756-Hanbang_Zhan_B-HP_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3756-Hanbang_Zhan_B-HP_NRSF.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=L3757-Hanbang_Zhan_B-HP_NRSF.2x36mers.unique.bam OUTPUT=L3757-Hanbang_Zhan_B-HP_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3757-Hanbang_Zhan_B-HP_NRSF.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=L3758-Hanbang_Zhan_B-O_NRSF.2x36mers.unique.bam OUTPUT=L3758-Hanbang_Zhan_B-O_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3758-Hanbang_Zhan_B-O_NRSF.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=L3759-Hanbang_Zhan_B-O_NRSF.2x36mers.unique.bam OUTPUT=L3759-Hanbang_Zhan_B-O_NRSF.2x36mers.unique.dedup.bam METRICS_FILE=L3759-Hanbang_Zhan_B-O_NRSF.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=L3905-K562_KLF1-PA5-86441.2x36mers.unique.bam OUTPUT=L3905-K562_KLF1-PA5-86441.2x36mers.unique.dedup.bam METRICS_FILE=L3905-K562_KLF1-PA5-86441.2x36mers.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=L3906-Julia1_KLF1-PA5-86441.2x36mers.unique.bam OUTPUT=L3906-Julia1_KLF1-PA5-86441.2x36mers.unique.dedup.bam METRICS_FILE=L3906-Julia1_KLF1-PA5-86441.2x36mers.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=L3907-K562_KLF1-NB100-1019.2x36mers.unique.bam OUTPUT=L3907-K562_KLF1-NB100-1019.2x36mers.unique.dedup.bam METRICS_FILE=L3907-K562_KLF1-NB100-1019.2x36mers.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=L3908-Julia2_KLF1-NB100-1019.2x36mers.unique.bam OUTPUT=L3908-Julia2_KLF1-NB100-1019.2x36mers.unique.dedup.bam METRICS_FILE=L3908-Julia2_KLF1-NB100-1019.2x36mers.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=L3909-Julia1_KLF1-H00010661.2x36mers.unique.bam OUTPUT=L3909-Julia1_KLF1-H00010661.2x36mers.unique.dedup.bam METRICS_FILE=L3909-Julia1_KLF1-H00010661.2x36mers.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=L3910-Julia2_KLF1-H00010661.2x36mers.unique.bam OUTPUT=L3910-Julia2_KLF1-H00010661.2x36mers.unique.dedup.bam METRICS_FILE=L3910-Julia2_KLF1-H00010661.2x36mers.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=L3915-K562_Input.2x36mers.unique.bam OUTPUT=L3915-K562_Input.2x36mers.unique.dedup.bam METRICS_FILE=L3915-K562_Input.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=L3916-Mkay_WT-1.2x36mers.unique.bam OUTPUT=L3916-Mkay_WT-1.2x36mers.unique.dedup.bam METRICS_FILE=L3916-Mkay_WT-1.2x36mers.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=L3917-Mkay_WT-2.2x36mers.unique.bam OUTPUT=L3917-Mkay_WT-2.2x36mers.unique.dedup.bam METRICS_FILE=L3917-Mkay_WT-2.2x36mers.unique.dedup.metric VALIDATION_STRINGENCY=LENIENT ASSUME_SORTED=true REMOVE_DUPLICATES=true