ArchTEx (Architectural Tag Extender) identifies the optimal extension of sequence tags based on the maximum correlation between forward and reverse tags and extracts and visualizes sites of interest using the predicted extension.
GFF-Ex, a Genome Feature extraction package extracts Gene, Exon, Intron, Upstream Region of Gene (Promoters), Intergenic and CDS/cDNA sequences by just tweeting in the Genome Feature File (gff) along with the corresponding genome/chromosome sequence.
CHEXVIS is a tool for molecular channel extraction and visualization. CHEXVIS supports the visual exploration of multiple channels together with their geometric and physico-chemical properties thereby enabling the understanding of the basic biology of transport through protein channels
MyWEST is a software package for effective mining of web interfaced biomolecular databanks. It provides an intuitive visual interface for building templates that define which information should be extracted from HTML pages of web databanks, then uses the created templates to mine information from multiple web pages of different databanks, stores and aggregates in a common database the extracted data, and allows performing articulated queries on the aggregated data for identification of hidden significant biological information.
ACME is a state-of-the-art open-source C++ software for reconstructing membranes to achieve high-quality whole cell segmentations. The software enables the quantification of cell morphologies, cell size, tissue interfaces, arrangement in tightly-packed tissues, and tissue geometry from time-lapse image sequences. The software is generic, modular, scalable to large datasets, and provides an easy API for interfacing with other software systems.
BioContext is a text mining system for extracting information about molecular processes in biomedical articles.Using the data extracted by BioContext, it is possible to get an overview of a range of biomolecular processes relating to a particular gene or anatomical location.