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Blast2GO® is an ALL in ONE tool for functional annotation of (novel) sequences and the analysis of annotation data.
Paintomics is a web tool for the integration and visualization of transcriptomics and metabolomics data.
Currently Paintomics supports integrated visualization of about one hundred top species of different biological kingdoms and offers user the possibility to request any other organism present in the KEGG database.
Qualimap is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data.
Serial Expression Analysis (SEA) is a web site for the analysis of serial gene expression data. Serial data is understood as multifactorial experimental designs where one of the factors is a quantitative variable such as time or treatment dose.
maSigPro is a statistical procedure to identify genes that show different gene expression profiles across analytical groups in time-course experiments.
The method has been implemented in the statistical language R and is freely available from the Bioconductor contributed packages repository
NOISeq is a non-parametric approach for the identification of differentially expressed genes from count data or previously normalized count data. NOISeq empirically models the noise distribution of count changes by contrasting fold-change differences (M) and absolute expression differences (D) for all the features in samples within the same condition.
NOISeq is available as a package in Bioconductor.
The STATegraEMS is an Experiment Management System (EMS) designed for storage and annotation of complex NGS and omics experiments. The STATegraEMS supports different types of sequencing-based assays, proteomics and metabolomics data.
spongeScan is a web tool designed to identify and visualize lncRNAs acting as putative miRNA sponges, by searching for multiple miRNA binding sites in lncRNAs.