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quantsmooth (version 1.38.0)
Quantile smoothing and genomic visualization of array data
Description
Implements quantile smoothing as introduced in: Quantile smoothing of array CGH data; Eilers PH, de Menezes RX; Bioinformatics. 2005 Apr 1;21(7):1146-53.
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Version
Version
1.38.0
1.36.0
1.34.0
1.32.0
Version
1.38.0
License
GPL-2
Maintainer
Jan Oosting
Last Published
February 15th, 2017
Functions in quantsmooth (1.38.0)
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numericCHR
Conversion of chromosome IDs between numeric and character
lengthChromosome
Retrieve chromosomal length
paintCytobands
Paint a chromosomal idiogram
quantsmooth.cv
quantsmooth.cv
drawSimpleChrom
Draw chromosome-like icons
helperFunctions
arraysmooth Helper functions
chrom.bands
Dataset of human chromosomes and their banding patterns
position2Cytoband
Determine cytoband position based on location of probe
plotChromosome
Wrapper for plotSmoothed
prepareGenomePlot
Set up a full genome plot
Chromosome14
Example data from several quantitative genomic methods
plotSmoothed
plotSmoothed
scaleto
Scales data within a range to a new range
quantsmooth
quantsmooth
grid.chromosome
Draw a chromosome using the grid package
getLambdaMin
getLambdaMin
quantsmooth.seg
quantsmooth.seg
getChangedRegions
getChangedRegions