OxyBS (version 1.0)

Processing of Oxy-Bisulfite Microarray Data

Description

Provides utilities for processing of Oxy-Bisulfite microarray data (e.g. via the Illumina Infinium platform) with tandem arrays, one using conventional bisulfite sequencing, the other using oxy-bisulfite sequencing.

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Version

Install

install.packages('OxyBS')

Monthly Downloads

642

Version

1.0

License

GPL (>= 2)

Maintainer

E Andres Houseman

Last Published

December 1st, 2015

Functions in OxyBS (1.0)

exampleUnmethBS

Sample Data: Unmethylated (green) signals from conventional bisulfite conversion.

diffBeta1

First derivative of beta minus-log-pdf with respect to first parameter

fitOxBS

Fit OxyBS for one specimen

exampleUnmethOxBS

Sample Data: Unmethylated (green) signals from oxy-bisulfite conversion.

fitOneOxBS

Fit one OxyBS result

exampleMethOxBS

Sample Data: Methylation (red) signals from oxy-bisulfite conversion.

rfEwasExampleCovariate

Simulated covariate for mixed-cell DNA methylation data set

likeOxBS

Likelihood function for C/5mC/5hmC likelihood estimator

scoreOxBS

Score function for C/5mC/5hmC likelihood estimator

diffBeta2

First derivative of beta minus-log-pdf with respect to second parameter

exampleMethBS

Sample Data: Methylation (red) signals from conventional bisulfite conversion.