numCollisions

 Numerical list of molecular weights (in Da) corresponding to a set of peaks 

peaks

 Resolution (in Da), used to specify the ability to distinguish two different molecular weights. For a resolution of <span class="option">0.5</span> (default), two molecular weights are considered identical if they are less than <span class="option">0.5</span> Da apart.

resolution


   Function to count the number of peak collisions (i.e. molecular weights are indistinguishable given the specified resolution)


 manip 

 list 

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

numCollisions function

Numerical list of molecular weights (in Da) corresponding to a set of peaks

Resolution (in Da), used to specify the ability to distinguish two different molecular weights. For a resolution of <option>0.5</option> (default), two molecular weights are considered identical if they are less than <option>0.5</option> Da apart.

Function to count the number of peak collisions (i.e. molecular weights are indistinguishable given the specified resolution)

numCollisions: Count peak collisions

Description

Usage

Arguments

Value

Examples