normalizeFragmentData

normalizeFragmentData,Data4Cseq-method

Experiment data of class <code>Data4Cseq</code> with information on the 4C-seq experiment

expData


This function provides a simple RPM (reads per million) normalization for near-cis fragment data read counts of a <code>Data4Cseq</code> object. A form of normalization is especially important for the comparison of samples with a different read count.


Basic4Cseq is an R/Bioconductor package for basic
filtering, analysis and subsequent visualization of 4C-seq
data. Virtual fragment libraries can be created for any
BSGenome package, and filter functions for both reads and
fragments and basic quality controls are included. Fragment
data in the vicinity of the experiment's viewpoint can be
visualized as a coverage plot based on a running median
approach and a multi-scale contact profile.

Carolin Walter

Basic4Cseq

Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data

normalizeFragmentData function

This function provides a simple RPM (reads per million) normalization for near-cis fragment data read counts of a <code>Data4Cseq</code> object. A form of normalization is especially important for the comparison of samples with a different read count.

normalizeFragmentData: Normalize near-cis fragment data read count

Description

Usage

Arguments

Value

Examples