A library of core preprocessing routines.

The package contains functions for exploratory oligonucleotide array analysis. The dependence on tkWidgets only concerns few convenience functions.

A package that extends and improves the functionality of the base affy package. Routines that make heavy use of compiled code for speed.

A normalization tool for RNA-Seq data, implementing the conditional quantile normalization method.

This package provides easy, fast functions for the extraction and annotation of individual probes from Affymetrix tiling arrays.

The EMDomics algorithm is used to perform a supervised multi-class analysis to measure the magnitude and statistical significance of observed continuous genomics data between groups. Usually the data will be gene expression values from array-based or ...

This package contains functions for reading raw data in ImaGene TXT format obtained from Exiqon miRCURY LNA arrays, annotating them with appropriate GAL files, and normalizing them using a spike-in probe-based method. Other platforms and data formats ...

Tools for advanced use of the frma package.

The package contains functions for pre-processing Affymetrix data using the RMA+ and the RMA++ methods.

Pipeline to read and analyze raw SNP array data. The data is preprocessed and normalized.

Functions to calculate estimates of intrinsic and extrinsic noise from the two-reporter single-cell experiment, as in Elowitz, M. B., A.