calcGC2

Local GC content  can be used to remove GC artifacts from copynumber data
(see Diskin et al, Nucleic Acids Research, 2008, PMID: 18784189). This
function will calculate GC content fraction in expanded windows around
a set of ranges following example in
http://www.bioconductor.org/help/course-materials/2012/useR2012/Bioconductor-tutorial.pdf.
Values are as.integer( 1e4 * fraction ) for space reasons.

GenoSet provides an extension of the RangedSummarizedExperiment class
    with additional API
    features. This class provides convenient and fast methods for working with
    segmented genomic data. Additionally,
    GenoSet provides the class RleDataFrame which stores runs of data along the
    genome for multiple samples and provides very fast summaries of arbitrary
    row sets (regions of the genome).

calcGC2: Calculate GC Percentage in sliding window

Description

Usage

Arguments

Value

Examples