Kept Illumina IDs

using v0.1.0 as genome

Bismark complete, third step is extraction'

robertsmac:bismark_v0.6.4 sr320$ ./methylation_extractor -s --comprehensive /Volumes/Bay3/Software/bismark_v0.6.4/filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq_bismark.sam

File

http://robertsmac.fish.washington.edu/~sr320/filefish/CpG_context_filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq_bismark.sam    (590M)

http://robertsmac.fish.washington.edu/~sr320/filefish/CHH_context_filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq_bismark.sam    (2G)

http://robertsmac.fish.washington.edu/~sr320/filefish/CHG_context_filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq_bismark.sam    (550M)

http://robertsmac.fish.washington.edu/~sr320/filefish/filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq_bismark.sam    (1.6G)

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http://aquacul4.fish.washington.edu/~steven/filefish/CpG_context_filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq_bismark.sam    (590M)