RLM

RLM computes read-level methylation metrics from bisulfite sequencing data to characterize single-read methylation patterns for epigenetic analysis.

Key Features:

• Compatibility and Flexibility: Compatible with standard alignment tools and operates independently of specific reference genomes.
• Scalability and Efficiency: Processes datasets containing up to a billion reads within a few hours on common workstations.
• Comprehensive Metric Computation: Computes several frequently used read-level methylation statistics to capture single-read methylation patterns.

Scientific Applications:

• Epigenetics and Gene Regulation: Enables detailed single-read methylation analysis to study epigenetic regulation and gene expression control.
• Differential Methylation Studies: Supports investigation of differential methylation patterns between samples or conditions.
• Environmental Epigenetics: Facilitates analysis of the impact of environmental factors on DNA methylation.
• Development and Cancer Research: Supports studies probing the role of methylation in development and cancer.

Methodology:

Extracts and analyzes single-read bisulfite sequencing alignments to compute read-level methylation statistics, accepting inputs from standard alignment tools and operating independently of reference genomes.