R Graphical Manual

Last data update: 2014.03.03

Data Source

R Release (3.2.3)
CranContrib
BioConductor
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Data Type

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Classification

Results 1 - 10 of 49 found.
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MethylSet-class (Package: minfi) : MethylSet instances

This class holds preprocessed data for Illumina methylation microarrays.

● Data Source: BioConductor
● Keywords:
● Alias: MethylSet, MethylSet-class
● 0 images

RGChannelSet-class (Package: minfi) : Class code{"RGChannelSet"

These classes represents raw (unprocessed) data from a two color micro array; specifically an Illumina methylation array.

● Data Source: BioConductor
● Keywords:
● Alias: RGChannelSet, RGChannelSet-class, RGChannelSetExtended, RGChannelSetExtended-class
● 0 images

RatioSet-class (Package: minfi) : RatioSet instances

This class holds preprocessed data for Illumina methylation microarrays.

● Data Source: BioConductor
● Keywords:
● Alias: RatioSet, RatioSet-class
● 0 images

blockFinder (Package: minfi) :

Finds blocks (large scale regions) of methylation differences for Illumina methylation arrays

● Data Source: BioConductor
● Keywords:
● Alias: blockFinder
● 0 images

bumphunter-methods (Package: minfi) : Methods for function code{bumphunter

Estimate regions for which a genomic profile deviates from its baseline value. Originally implemented to detect differentially methylated genomic regions between two populations, but can be applied to any CpG-level coefficient of interest.

● Data Source: BioConductor
● Keywords:
● Alias: bumphunter,GenomicRatioSet-method
● 0 images

compartments (Package: minfi) :

Estimates A/B compartments as revealed by Hi-C by computing the first eigenvector on a binned probe correlation matrix.

● Data Source: BioConductor
● Keywords:
● Alias: compartments, createCorMatrix, extractAB
● 0 images

controlStripPlot (Package: minfi) :

Strip plots are produced for each control probe type specified.

● Data Source: BioConductor
● Keywords:
● Alias: controlStripPlot
● 1 images

cpgCollapse (Package: minfi) :

This function groups adjacent loci into clusters with a specified maximum gap between CpGs in the cluster, and a specified maximum cluster width. The loci within each cluster are summarized resulting in a single methylation estimate per cluster.

● Data Source: BioConductor
● Keywords:
● Alias: cpgCollapse
● 0 images

densityBeanPlot (Package: minfi) :

Density ‘bean’ plots of methylation Beta values, primarily for QC.

● Data Source: BioConductor
● Keywords:
● Alias: densityBeanPlot
● 1 images

densityPlot (Package: minfi) :

Density plots of methylation Beta values, primarily for QC.

● Data Source: BioConductor
● Keywords:
● Alias: densityPlot
● 1 images