getChunkIndex

getChunkIndex,GenomicTiles-method

object

A vector if tile ids. By default the complete index is returned.


The chunk index holds the Granges object that splits the entire dataset in
chunk, that is non-overlapping intervals.


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

getChunkIndex function

The chunk index holds the Granges object that splits the entire dataset in
chunk, that is non-overlapping intervals.

getChunkIndex: Compute the index for chunks instead tiles

Description

Usage

Arguments

Value

Examples