MOABS: MOdel based Analysis of Bisulfite Sequencing data

A complete, accurate and efficient solution for analysis of large scale base-resolution DNA methylation data, bisulfite sequencing or single molecule direct sequencing

https://s3.amazonaws.com/deqiangsun/software/moabs/moabs-v1.3.4.src.x86_64_Linux.data.tar.gz

ExactNumCI: Exact Numerical Confidence Interval for binomial proportions

A package available in C++ and R library for exact numerical modeling of binomial proportions applicable to analysis of methylcytosine and hydroxymethycotine

http://code.google.com/p/exactnumci

MEPS: Methylation Pipeline and Service

A cloud computation solution for DNA methylation analysis to make it biologist friendly and as fast as coffee time

http://code.google.com/p/meps/