Robust spline interpolation for dual color array comparative genomic hybridisation data

Documentation for package ‘aCGH.Spline’ version 2.1

aCGH.Spline	Package for robust spline interpolation normalisation on dual color aCGH data.
batch.spline	Function for batch processing.
dLRs	Caculate the DLR Spread.
f.Noise	Noise calculating function.
fe.extract	Function to extract Feature Extraction data.
fe.read	Function to read Feature Extraction files.
fe.write	Function to output a Feature extraction formatted file.
GenomePlot	Produces a genome plot.
Jspline	Spline fitting and interpolation function.
MakePDF	Write a PDF containing some normalisation plots.
MAPlot1	Produce a MAplot showing points retained vs. points excluded.
MAPlot2	Produce a MAplot showing points fitted vs. points interpolated.
nim.read	Function to read a Nimblegen "SEG_MNT.txt" file.
ProPlot	Produce a simple overview plot of the data.
run.spline	Function to process a single file.
segN	Segmentation method for noise calculation.
SetJ	Function to set the java class path and heap size.
WriteGFF	Function to write a GFF formatted file.
WriteQC	Function to produce a QC report.