importEpiTyperData

 location of EpiTyper datafile as a character string 

data

 Pre-existent MassArrayData object in which store relevant sample and spectral information from datafile 

MassArrayObject

 Logical specifying whether or not to display descriptive progress updates as datafile is processed 

verbose


  Function to read and import an EpiTyper datafile (v.1.0) and store it as a MassArraySpectrum objects


 attribute

 file

This package is designed for the import, quality control, analysis, and visualization of methylation data generated using Sequenom's MassArray platform.  The tools herein contain a highly detailed amplicon prediction for optimal assay design.  Also included are quality control measures of data, such as primer dimer and bisulfite conversion efficiency estimation.  Methylation data are calculated using the same algorithms contained in the EpiTyper software package.  Additionally, automatic SNP-detection can be used to flag potentially confounded data from specific CG sites.  Visualization includes barplots of methylation data as well as UCSC Genome Browser-compatible BED tracks.  Multiple assays can be positionally combined for integrated analysis.

Reid F Thompson

MassArray

Analytical Tools for MassArray Data

importEpiTyperData function

location of EpiTyper datafile as a character string

Pre-existent MassArrayData object in which store relevant sample and spectral information from datafile

Logical specifying whether or not to display descriptive progress updates as datafile is processed

Function to read and import an EpiTyper datafile (v.1.0) and store it as a MassArraySpectrum objects

importEpiTyperData: Import EpiTyper data (v.1.0)

Description

Usage

Arguments

Value

Details

See Also