Summary: Reduced representation bisulfite sequencing (RRBS) is a cost-effective approach for genome-wide methylation pattern profiling. Analyzing RRBS sequencing data is challenging and specialized alignment/mapping programs are needed. Although such programs have been developed, a comprehensive solution that provides researchers with good quality and analyzable data is still lacking. To address this need, we have developed a Streamlined Analysis and Annotation Pipeline for RRBS data (SAAP-RRBS) that integrates read quality assessment/clean-up, alignment, methylation data extraction, annotation, reporting and visualization. This package facilitates a rapid transition from sequencing reads to a fully annotated CpG methylation report to biological interpretation. © The Author(s) 2012. Published by Oxford University Press.
CITATION STYLE
Sun, Z., Baheti, S., Middha, S., Kanwar, R., Zhang, Y., Li, X., … Kocher, J. P. A. (2012). SAAP-RRBS: Streamlined analysis and annotation pipeline for reduced representation bisulfite sequencing. Bioinformatics, 28(16), 2180–2181. https://doi.org/10.1093/bioinformatics/bts337
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