DNAdye
DNAdye is an open-source software package for analyzing DNA sequencing data, with a focus on DNA methylation profiling. The project provides end-to-end support for preprocessing, methylation extraction from bisulfite sequencing data, differential methylation analysis, and visualization, integrating with common bioinformatics workflows.
Implementation and license: DNAdye is implemented primarily in Python, with performance-critical components written in C++. It
Key features include quality control and trimming, alignment evaluation, methylation calling, statistical testing for differential methylation,
Development and reception: DNAdye originated as a collaborative effort among research groups to streamline methylation analysis
DNAdye is often used alongside established tools such as Bismark and BS-Seeker for comprehensive methylation analysis.