GenoGAMDataSet-class


This class is designed to represent the input for the GenoGAM model.
it extends the GenomicTiles class.


This package allows statistical analysis of genome-wide
data with smooth functions using generalized additive models
based on the implementation from the R-package 'mgcv'. It
provides methods for the statistical analysis of ChIP-Seq data
including inference of protein occupancy, and pointwise and
region-wise differential analysis. Estimation of dispersion and
smoothing parameters is performed by cross-validation. Scaling
of generalized additive model fitting to whole chromosomes is
achieved by parallelization over overlapping genomic intervals.

Georg Stricker

GenoGAM

A GAM based framework for analysis of ChIP-Seq data

GenoGAMDataSet-class function

 <dl>
<dt><code>settings</code></dt><dd>The global and local settings that were used to compute the model.</dd> <dt><code>design</code></dt><dd>The formula describing how to evaluate the data.</dd> <dt><code>sizeFactors</code></dt><dd>The normalized values for each sample.</dd> </dl>

Slots

This class is designed to represent the input for the GenoGAM model.
it extends the GenomicTiles class.

GenoGAMDataSet-class: GenoGAMDataSet

Description

Arguments

Slots

Details