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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