RPA-package | RPA: probabilistic analysis of probe reliability and gene expression |
collect.hyperparameters | collect.hyperparameters |
d.update.fast | d.update.fast |
estimate.affinities | estimate.affinities |
estimate.hyperparameters | estimate.hyperparameters Hyperparameter estimation |
frpa | frpa frozen-RPA preprocessing using precalculated probe parameters |
get.batches | get.batches Split data into batches |
get.probe.matrix | get.probe.matrix |
get.probe.parameters | get.probe.parameters |
hyperparameter.update | hyperparameter.update Update hyperparameters Update shape (alpha) and scale (beta) parameters of the inverse gamma distribution. |
online.quantile | online.quantile Quantile normalization tools for online preprocessing. Estimate quantiles for quantile normalization based on subset of the data (random, or specified by the user). |
probe.parameters.tolist | probe.parameters.tolist |
probe.performance | probe.performance |
probetable | probetable |
RPA | RPA: probabilistic analysis of probe reliability and gene expression |
rpa | rpa Wrapper for RPA preprocessing. |
rpa.complete | rpa.complete RPA preprocessing, also returns probe parameters |
rpa.fit | rpa.fit |
RPA.iteration | RPA.iteration Estimating model parameters d and tau2. |
rpa.online | rpa.online RPA-online for preprocessing very large expression data sets. |
rpa.plot | rpa.plot Plot RPA results and probe-level data for a specified probeset. |
RPA.preprocess | RPA.preprocess Preprocess AffyBatch object for RPA. |
rpa.summarize | rpa.summarize |
rpaplot | rpaplot Plot RPA results and probe-level data for a specified probeset. |
sample.probeset | sample.probeset Toydata generator for probeset data. |
summarize.batch | summarize.batch |
summarize.batches | summarize.batches |
updating.hyperparameters | updating.hyperparameters Hyperparameter update |