MaRe (Microarray Retriever) enables batch retrieval of microarray data matching your search criteria from the seas of data in GEO and ArrayExpress microarray repositories. You can search on accession numbers (GSE, GDS, AE_ACCN, PMID), authors, species, dates, platforms or on keywords of unspecified type.
survGenesInterim is an R package for simulation of survival studies based on simulated gene expression level and patient data. Includes functions to generate such data. Resulting error and power rate can be visualized.
QUBIC ( QUalitative BIClustering algorithm) provides a biclustering module for microarray data. For a set of genes and a set of conditions, the program outputs a block-like structure which shows uniform pattern within the block, the block would contain only subsets of all given genes under subsets of all given conditions.
QUBIC2 is a novel biclustering algorithm for analyses of gene expression data from bulk and single-cell RNA-Sequencing.
CAFE (Chromosomal Aberration Finder in Expression data) is an R package for the detection of gross chromosomal gains and losses from expression microarrays, with a resolution up to cytoband level.
The ReportingTools software package enables users to easily display reports of analysis results generated from sources such as microarray and sequencing data. The package allows users to create HTML pages that may be viewed on a web browser such as Safari, or in other formats readable by programs such as Excel.