Msuite

Msuite provides analysis of DNA methylation data to enable methylation profiling and DNA methylome studies, including support for bisulfite-free sequencing methods.

Key Features:

• 4-letter analysis mode: A 4-letter analysis mode optimized for bisulfite-free methodologies for methylation profiling.
• Quality control: Integrated quality control measures for sequencing and methylation datasets.
• Methylation calling algorithms: Algorithms for precise inference of methylation states from sequencing data.
• Data visualization: Visualization capabilities for interpretation of complex methylation datasets.
• Implementation and requirements: Implemented in Perl and R and intended for Linux/Unix with Bash 4+, Perl 5.10+, and R 2.10+ installed.
• High-performance processing: High-performance processing tailored for DNA methylation data analysis.

Scientific Applications:

• DNA methylome studies: Comprehensive analysis of DNA methylomes to characterize methylation patterns.
• Methylation profiling from bisulfite-free protocols: Profiling of DNA methylation using bisulfite-free sequencing methods.
• Epigenetics data interpretation: Interpretation and visualization of complex methylation datasets for epigenetic research.

Methodology:

Implements a 4-letter analysis mode, integrated quality control measures, methylation calling algorithms, and data visualization; implemented in Perl and R for execution on Linux/Unix with Bash 4+, Perl 5.10+, and R 2.10+.