Module	Section	Sample Name	Source
Bismark	alignment	LCo_BSr1.LCo_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/50/LCo_BSr1.LCo_BSr1_1_val_1_bismark_bt2_PE_report.txt
Bismark	alignment	LCo_BSr2.LCo_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/45/LCo_BSr2.LCo_BSr2_1_val_1_bismark_bt2_PE_report.txt
Bismark	alignment	LCo_BSr3.LCo_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/47/LCo_BSr3.LCo_BSr3_1_val_1_bismark_bt2_PE_report.txt
Bismark	alignment	LYa_BSr1.LYa_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/46/LYa_BSr1.LYa_BSr1_1_val_1_bismark_bt2_PE_report.txt
Bismark	alignment	LYa_BSr2.LYa_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/48/LYa_BSr2.LYa_BSr2_1_val_1_bismark_bt2_PE_report.txt
Bismark	alignment	LYa_BSr3.LYa_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/49/LYa_BSr3.LYa_BSr3_1_val_1_bismark_bt2_PE_report.txt
Bismark	deduplication	LCo_BSr1.LCo_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/44/LCo_BSr1.LCo_BSr1_1_val_1_bismark_bt2_pe.deduplication_report.txt
Bismark	deduplication	LCo_BSr2.LCo_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/39/LCo_BSr2.LCo_BSr2_1_val_1_bismark_bt2_pe.deduplication_report.txt
Bismark	deduplication	LCo_BSr3.LCo_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/41/LCo_BSr3.LCo_BSr3_1_val_1_bismark_bt2_pe.deduplication_report.txt
Bismark	deduplication	LYa_BSr1.LYa_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/40/LYa_BSr1.LYa_BSr1_1_val_1_bismark_bt2_pe.deduplication_report.txt
Bismark	deduplication	LYa_BSr2.LYa_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/42/LYa_BSr2.LYa_BSr2_1_val_1_bismark_bt2_pe.deduplication_report.txt
Bismark	deduplication	LYa_BSr3.LYa_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/43/LYa_BSr3.LYa_BSr3_1_val_1_bismark_bt2_pe.deduplication_report.txt
Bismark	methylation_extraction	LCo_BSr1.LCo_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/56/LCo_BSr1.LCo_BSr1_1_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt
Bismark	methylation_extraction	LCo_BSr2.LCo_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/54/LCo_BSr2.LCo_BSr2_1_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt
Bismark	methylation_extraction	LCo_BSr3.LCo_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/51/LCo_BSr3.LCo_BSr3_1_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt
Bismark	methylation_extraction	LYa_BSr1.LYa_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/52/LYa_BSr1.LYa_BSr1_1_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt
Bismark	methylation_extraction	LYa_BSr2.LYa_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/53/LYa_BSr2.LYa_BSr2_1_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt
Bismark	methylation_extraction	LYa_BSr3.LYa_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/55/LYa_BSr3.LYa_BSr3_1_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt
Bismark	m_bias	LCo_BSr1.LCo_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/62/LCo_BSr1.LCo_BSr1_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Bismark	m_bias	LCo_BSr2.LCo_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/60/LCo_BSr2.LCo_BSr2_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Bismark	m_bias	LCo_BSr3.LCo_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/57/LCo_BSr3.LCo_BSr3_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Bismark	m_bias	LYa_BSr1.LYa_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/58/LYa_BSr1.LYa_BSr1_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Bismark	m_bias	LYa_BSr2.LYa_BSr2_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/59/LYa_BSr2.LYa_BSr2_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Bismark	m_bias	LYa_BSr3.LYa_BSr3_1_val_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/61/LYa_BSr3.LYa_BSr3_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Cutadapt	all_sections	LCo_BSr1_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/29/LCo_BSr1_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr1_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/30/LCo_BSr1_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr2_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/27/LCo_BSr2_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr2_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/28/LCo_BSr2_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr3_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/31/LCo_BSr3_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr3_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/32/LCo_BSr3_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr1_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/33/LYa_BSr1_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr1_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/34/LYa_BSr1_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr2_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/37/LYa_BSr2_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr2_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/38/LYa_BSr2_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr3_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/35/LYa_BSr3_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr3_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/36/LYa_BSr3_2.fastq.gz_trimming_report.txt
FastQC	all_sections	LCo_BSr1_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/3/LCo_BSr1_1_fastqc.zip
FastQC	all_sections	LCo_BSr1_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/4/LCo_BSr1_2_fastqc.zip
FastQC	all_sections	LCo_BSr2_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/17/LCo_BSr2_1_fastqc.zip
FastQC	all_sections	LCo_BSr2_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/6/LCo_BSr2_2_fastqc.zip
FastQC	all_sections	LCo_BSr3_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/21/LCo_BSr3_1_fastqc.zip
FastQC	all_sections	LCo_BSr3_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/22/LCo_BSr3_2_fastqc.zip
FastQC	all_sections	LYa_BSr1_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/7/LYa_BSr1_1_fastqc.zip
FastQC	all_sections	LYa_BSr1_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/20/LYa_BSr1_2_fastqc.zip
FastQC	all_sections	LYa_BSr2_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/11/LYa_BSr2_1_fastqc.zip
FastQC	all_sections	LYa_BSr2_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/24/LYa_BSr2_2_fastqc.zip
FastQC	all_sections	LYa_BSr3_1	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/13/LYa_BSr3_1_fastqc.zip
FastQC	all_sections	LYa_BSr3_2	/gscratch/scrubbed/srlab/nxf.IhFKCXM0d3/14/LYa_BSr3_2_fastqc.zip