MPFE-package: MPFE

In paulyLin/MPFE: Estimation of the amplicon methylation pattern distribution from bisulphite sequencing data

Description

Estimate distribution of methylation patterns from a table of counts from a bisulphite sequencing experiment given a non-conversion rate and sequencing error rate.

Details

Package:	MPFE
Type:	Package
License:	GPL(>=3)

The main component of this package is the function estimatePatterns, which reads a table of read counts of bisulphite sequencing data for a given amplicon and generates a table and plot of the estimated distribution over methylation patterns.

Author(s)

Peijie Lin, Sylvain Foret, Conrad Burden

Maintainer: [e-mail]

Examples

  data(patternsExample)
  estimates <- estimatePatterns(patternsExample, epsilon=0.02, eta=0.01)
  estimates
  plotPatterns(estimates[[2]])

paulyLin/MPFE documentation built on May 24, 2019, 10:34 p.m.