BSXplorer

BSXplorer provides an analytical framework for exploratory analysis of bisulfite sequencing (BS-seq) data, enabling visualization, comparative analysis, and identification of modules with shared methylation signatures.

Key Features:

• Methylation profiling: Profiles methylation levels in metagenes or user-defined regions using line plots and heatmaps, with generation of summary statistics charts.
• Comparative analysis: Enables comparison of methylation patterns across experimental samples, methylation contexts, and species.
• Module identification: Identifies modules sharing similar methylation signatures at functional genomic elements.

Scientific Applications:

• Epigenetic regulation studies: Supports genome-wide exploration of epigenetic regulation in both plants and animals, including non-model organisms with poorly annotated or unassembled genomes.
• Evolutionary and agrigenomics research: Facilitates DNA methylation profiling for studies of epigenetic inheritance, phenotypic variation, and conservation of epigenetic mechanisms across divergent taxa.

Methodology:

BSXplorer processes bisulfite sequencing data through API and CLI interfaces to generate publication-quality figures.