/oak/stanford/groups/akundaje/marinovg/programs/Bismark_v0.19.0/bismark_methylation_extractor -s --no_overlap --comprehensive --merge_non_CpG --gzip --multicore 16 --bedGraph --cytosine_report --CX --genome_folder /oak/stanford/groups/akundaje/marinovg/genomes/repeats/RepBase17.08.fasta/drorep-Bismarck Drosophila_melanogaster_BS-Seq-GSM497255-Bismark_v0.19.0.bowtie1.drorep.bam
/oak/stanford/groups/akundaje/marinovg/programs/Bismark_v0.19.0/bismark_methylation_extractor -s --no_overlap --comprehensive --merge_non_CpG --gzip --multicore 16 --bedGraph --cytosine_report --CX --genome_folder /oak/stanford/groups/akundaje/marinovg/genomes/repeats/RepBase17.08.fasta/drorep-Bismarck Drosophila_melanogaster_BS-Seq-GSM497255-Bismark_v0.19.0.bowtie1.drorep.pbat.bam
/oak/stanford/groups/akundaje/marinovg/programs/Bismark_v0.19.0/bismark_methylation_extractor -s --no_overlap --comprehensive --merge_non_CpG --gzip --multicore 16 --bedGraph --cytosine_report --CX --genome_folder /oak/stanford/groups/akundaje/marinovg/genomes/repeats/RepBase17.08.fasta/drorep-Bismarck Drosophila_melanogaster_BS-Seq-GSM497255-Bismark_v0.19.0.bowtie1.drorep.pbat.untrimmed.bam
/oak/stanford/groups/akundaje/marinovg/programs/Bismark_v0.19.0/bismark_methylation_extractor -s --no_overlap --comprehensive --merge_non_CpG --gzip --multicore 16 --bedGraph --cytosine_report --CX --genome_folder /oak/stanford/groups/akundaje/marinovg/genomes/repeats/RepBase17.08.fasta/drorep-Bismarck Drosophila_melanogaster_BS-Seq-GSM497255-Bismark_v0.19.0.bowtie1.drorep.untrimmed.bam
/oak/stanford/groups/akundaje/marinovg/programs/Bismark_v0.19.0/bismark_methylation_extractor -s --no_overlap --comprehensive --merge_non_CpG --gzip --multicore 16 --bedGraph --cytosine_report --CX --genome_folder /oak/stanford/groups/akundaje/marinovg/genomes/repeats/RepBase17.08.fasta/drorep-Bismarck-BT2 Drosophila_melanogaster_BS-Seq-GSM497255-Bismark_v0.19.0.bowtie2.drorep.pbat.bt2.bam
/oak/stanford/groups/akundaje/marinovg/programs/Bismark_v0.19.0/bismark_methylation_extractor -s --no_overlap --comprehensive --merge_non_CpG --gzip --multicore 16 --bedGraph --cytosine_report --CX --genome_folder /oak/stanford/groups/akundaje/marinovg/genomes/repeats/RepBase17.08.fasta/drorep-Bismarck-BT2 Drosophila_melanogaster_BS-Seq-GSM497255-Bismark_v0.19.0.bowtie2.drorep.pbat.untrimmed.bt2.bam