Module	Section	Sample Name	Source
Bismark	alignment	LCo_BSr1.LCo_BSr1_1_val_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/41/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.HTpPwf7YWN/43/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.HTpPwf7YWN/40/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.HTpPwf7YWN/39/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.HTpPwf7YWN/42/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.HTpPwf7YWN/44/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.HTpPwf7YWN/47/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.HTpPwf7YWN/49/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.HTpPwf7YWN/46/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.HTpPwf7YWN/45/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.HTpPwf7YWN/48/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.HTpPwf7YWN/50/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.HTpPwf7YWN/59/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.HTpPwf7YWN/61/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.HTpPwf7YWN/58/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.HTpPwf7YWN/57/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.HTpPwf7YWN/60/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.HTpPwf7YWN/62/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.HTpPwf7YWN/53/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.HTpPwf7YWN/55/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.HTpPwf7YWN/52/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.HTpPwf7YWN/51/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.HTpPwf7YWN/54/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.HTpPwf7YWN/56/LYa_BSr3.LYa_BSr3_1_val_1_bismark_bt2_pe.deduplicated.M-bias.txt
Cutadapt	all_sections	LCo_BSr1_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/35/LCo_BSr1_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr1_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/36/LCo_BSr1_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr2_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/33/LCo_BSr2_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr2_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/34/LCo_BSr2_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr3_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/27/LCo_BSr3_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LCo_BSr3_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/28/LCo_BSr3_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr1_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/29/LYa_BSr1_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr1_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/30/LYa_BSr1_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr2_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/37/LYa_BSr2_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr2_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/38/LYa_BSr2_2.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr3_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/31/LYa_BSr3_1.fastq.gz_trimming_report.txt
Cutadapt	all_sections	LYa_BSr3_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/32/LYa_BSr3_2.fastq.gz_trimming_report.txt
FastQC	all_sections	LCo_BSr1_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/7/LCo_BSr1_1_fastqc.zip
FastQC	all_sections	LCo_BSr1_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/20/LCo_BSr1_2_fastqc.zip
FastQC	all_sections	LCo_BSr2_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/3/LCo_BSr2_1_fastqc.zip
FastQC	all_sections	LCo_BSr2_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/4/LCo_BSr2_2_fastqc.zip
FastQC	all_sections	LCo_BSr3_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/17/LCo_BSr3_1_fastqc.zip
FastQC	all_sections	LCo_BSr3_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/6/LCo_BSr3_2_fastqc.zip
FastQC	all_sections	LYa_BSr1_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/13/LYa_BSr1_1_fastqc.zip
FastQC	all_sections	LYa_BSr1_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/14/LYa_BSr1_2_fastqc.zip
FastQC	all_sections	LYa_BSr2_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/21/LYa_BSr2_1_fastqc.zip
FastQC	all_sections	LYa_BSr2_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/22/LYa_BSr2_2_fastqc.zip
FastQC	all_sections	LYa_BSr3_1	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/11/LYa_BSr3_1_fastqc.zip
FastQC	all_sections	LYa_BSr3_2	/gscratch/scrubbed/srlab/nxf.HTpPwf7YWN/24/LYa_BSr3_2_fastqc.zip