getCoordinates

getCoordinates,GenomicTiles-method

object


The /codecoordinates slot contains the row coordinates of each
chromosome in the data. Such that taken a genomic position from
a chromosome it's easy to detect the correct row in the assay


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

getCoordinates function

The /code{coordinates} slot contains the row coordinates of each
chromosome in the data. Such that taken a genomic position from
a chromosome it's easy to detect the correct row in the assay

getCoordinates: Accessor to the /codecoordinates slot

Description

Usage

Arguments

Value

Examples