# Computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants

## Documentation for package ‘AlphaBeta’ version 1.23.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

ABneutral | Run Model with no selection (ABneutral)
ABneutralSOMA | Model with no selection (outneutral)
ABnull | Run model that considers no accumulation of epimutations (ABnull)
ABplot | Plotting estimates
ABselectMM | Run model with selection against spontaneous gain of methylation (ABselectMM)
ABselectMMSOMA | Model with selection against spontaneous gain of methylation (outselectMM)
ABselectUU | Run model with selection against spontaneous loss of methylation (ABselectUU)
ABselectUUSOMA | Model with selection against spontaneous loss of methylation (outselectUU)
BOOTmodel | Bootstrap analysis with the best model
buildPedigree | Building Pedigree
dMatrix | Constructing D-Matrices
FtestRSS | Comparison of different models and selection of best model
plotPedigree | Plot Pedigree
rc.meth.lvl | Calculating rc.Meth.lvl