getTile

getTile,GenomicTiles-method

object

The maximal number of rows that should be handled at once.
If the dataset is bigger it will be processed in chunks. This is to lower
memory consumption on big datasets, which in turn is slower.

size


Extracting one or multiple tiles from a <code>GenomicTiles</code> object
and coercing them to a DataFrameList.


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

getTile function

Extracting one or multiple tiles from a <code>GenomicTiles</code> object
and coercing them to a DataFrameList.

getTile: Tile extraction as a DataFrame

Description

Usage

Arguments

Value

Examples