README.md

In PeteHaitch/methsim: An R package to simulate DNA methylation data

R package: methsim

This package is no longer under active development. It was developed as an experiment as part of my PhD research. The repository remains available mostly for archival purposes, but forks are of course welcome under the GPL (>= 2) license.

methsim is software to simulate DNA methylation sequencing data. methsim can currently simulate data from bisulfite-sequencing assays such as methylC-seq or BS-seq. It uses a non-stationary, inhomogeneous Markov model. This model can incorporate the strong spatial dependence of DNA methylation. Simulation parameters can be estimated from data or specified by the user.

methsim is in development and can only be installed using the development version of Bioconductor. Please first read these instructions on installing the development version of Bioconductor.

# Install devtools if not already installed
if (suppressWarnings(!require(devtools))) {
  install.packages('devtools')
}
# Install 'phd-thesis' version of MethylationTuples
devtools::install_github("PeteHaitch/MethylationTuples@phd-thesis")
# Install development version of methsim
devtools::install_github("PeteHaitch/methsim")

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PeteHaitch/methsim documentation built on May 8, 2019, 1:32 a.m.