ROTS R-package implements the reproducibility-optimized test statistic (ROTS) for ranking genes or proteins in terms of differential expression in two-group comparisons.
DCeN R-package implements the Dynamically Co-expressed Neighborhoods (DCeN) for ranking genes in genome-wide time-resolved gene expression profiling studies.
PECA R-package implements Probe/peptide-level Expression Change Averages (PECA) for improved differential expression analysis for Affymetrix microarrays and proteomics.
PASI Pathway analysis tool implements Pathway Analysis for Sample-level Information (PASI) that provides pathway values for each analyzed sample and pathway separately.
Phosphonormalizer R-package compensates for the bias introduced by median normalization in phosphoproteomics.
SimPhospho Proteomics software for simulation of spectra of phosphopeptides enabling confident phosphosite assignment.
CETEG R package implements the CEll Type Extractor for Gene expression (CETEG) for detecting the cell type specific expression profiles from bulk gene expression data.