Module	Section	Sample Name	Source
Samtools	flagstat	Green3F-R3	/home/aaron/guppy_methylseq/main_data1/Green3F-R3.bam.stats.txt
Samtools	flagstat	Green3F-R2	/home/aaron/guppy_methylseq/main_data1/Green3F-R2.bam.stats.txt
Samtools	flagstat	Clear2F-R1	/home/aaron/guppy_methylseq/main_data1/Clear2F-R1.bam.stats.txt
Samtools	flagstat	Lilac4F-R2	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R2.bam.stats.txt
Samtools	flagstat	Clear2F-R2	/home/aaron/guppy_methylseq/main_data1/Clear2F-R2.bam.stats.txt
Samtools	flagstat	Clear2F-R3	/home/aaron/guppy_methylseq/main_data1/Clear2F-R3.bam.stats.txt
Samtools	flagstat	Lilac4F-R3	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R3.bam.stats.txt
Samtools	flagstat	Foundation	/home/aaron/guppy_methylseq/main_data1/Foundation.bam.stats.txt
Samtools	flagstat	Green3F-R1	/home/aaron/guppy_methylseq/main_data1/Green3F-R1.bam.stats.txt
Samtools	flagstat	Lilac4F-R1	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R1.bam.stats.txt
Skewer	all_sections	Lilac4F-R1_R1_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R1_R1_001.fastq-trimmed.log
Skewer	all_sections	Clear2F-R1_R1_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R1_R1_001.fastq-trimmed.log
Skewer	all_sections	Green3F-R1_R1_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R1_R1_001.fastq-trimmed.log
Skewer	all_sections	Green3F-R2_R1_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R2_R1_001.fastq-trimmed.log
Skewer	all_sections	Clear2F-R3_R1_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R3_R1_001.fastq-trimmed.log
Skewer	all_sections	Green3F-R3_R1_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R3_R1_001.fastq-trimmed.log
Skewer	all_sections	Foundation_R1_001	/home/aaron/guppy_methylseq/main_data1/Foundation_R1_001.fastq-trimmed.log
Skewer	all_sections	Lilac4F-R2_R1_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R2_R1_001.fastq-trimmed.log
Skewer	all_sections	Lilac4F-R3_R1_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R3_R1_001.fastq-trimmed.log
Skewer	all_sections	Clear2F-R2_R1_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R2_R1_001.fastq-trimmed.log
FastQC	all_sections	Lilac4F-R1_R1_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R1_R1_001_fastqc.zip
FastQC	all_sections	Clear2F-R2_R2_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R2_R2_001_fastqc.zip
FastQC	all_sections	Foundation_R2_001	/home/aaron/guppy_methylseq/main_data1/Foundation_R2_001_fastqc.zip
FastQC	all_sections	Green3F-R3_R1_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R3_R1_001_fastqc.zip
FastQC	all_sections	Clear2F-R1_R2_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R1_R2_001_fastqc.zip
FastQC	all_sections	Clear2F-R3_R1_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R3_R1_001_fastqc.zip
FastQC	all_sections	Clear2F-R1_R1_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R1_R1_001_fastqc.zip
FastQC	all_sections	Clear2F-R3_R2_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R3_R2_001_fastqc.zip
FastQC	all_sections	Green3F-R2_R2_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R2_R2_001_fastqc.zip
FastQC	all_sections	Lilac4F-R3_R1_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R3_R1_001_fastqc.zip
FastQC	all_sections	Clear2F-R2_R1_001	/home/aaron/guppy_methylseq/main_data1/Clear2F-R2_R1_001_fastqc.zip
FastQC	all_sections	Green3F-R2_R1_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R2_R1_001_fastqc.zip
FastQC	all_sections	Foundation_R1_001	/home/aaron/guppy_methylseq/main_data1/Foundation_R1_001_fastqc.zip
FastQC	all_sections	Lilac4F-R3_R2_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R3_R2_001_fastqc.zip
FastQC	all_sections	Lilac4F-R2_R2_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R2_R2_001_fastqc.zip
FastQC	all_sections	Lilac4F-R2_R1_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R2_R1_001_fastqc.zip
FastQC	all_sections	Green3F-R3_R2_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R3_R2_001_fastqc.zip
FastQC	all_sections	Lilac4F-R1_R2_001	/home/aaron/guppy_methylseq/main_data1/Lilac4F-R1_R2_001_fastqc.zip
FastQC	all_sections	Green3F-R1_R1_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R1_R1_001_fastqc.zip
FastQC	all_sections	Green3F-R1_R2_001	/home/aaron/guppy_methylseq/main_data1/Green3F-R1_R2_001_fastqc.zip