R Normalization and Inference of Time Series data


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Documentation for package ‘Rnits’ version 1.40.0

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rnits-package rnits.
$ replace slot of Rnits
$<--method replace slot of Rnits
build.Rnits Input the RGlist raw data, build a Rnits object and perform filtering and normalization
calculateGCV Calculate the optimal B-spline model using generalized cross-validation
calculateGCV-method Calculate the optimal B-spline model using generalized cross-validation
fit Fit model on time series data
fit-method Fit model on time series data
getCID Cluster IDs of probes/genes from fitted 'Rnits'
getCID-method Cluster IDs of probes/genes from fitted 'Rnits'
getFitModel Extract fit data from 'Rnits' object
getFitModel-method Extract fit data from 'Rnits' object
getLR Get log-ratios
getLR-method Get log-ratios
getNormTwoChannel Get Normalized channel data for two channel arrays
getNormTwoChannel-method Get Normalized channel data for two channel arrays
getPval Get p-values
getPval-method Get p-values
getStat Retrieve ratio statistics
getStat-method Retrieve ratio statistics
plotResults Plot profiles of top genes/probes
plotResults-method Plot profiles of top genes/probes
rnits rnits.
Rnits-class rnits class
Rnits.getLR Get log-ratios
summarizeProbes Summarize probe level data to gene level data
summarizeProbes-method Summarize probe level data to gene level data
summary-method Summary of fit
timeAlign Curve registration of time series curves
timeAlign-method Curve registration of time series curves
topData Data of top genes/probes
topData-method Data of top genes/probes
yeastchemostat Yeast chemostat data from Ronen and Botstein (Proc Natl Acad Sci U S A. 2006 Jan 10;103(2):389-94. Epub 2005 Dec 28.)