phyloXML: XML for evolutionary biology and comparative genomics
phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and assoc...oXML, extensibility as well as domain specific applications are ensured. The structure...2392 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
Delta is an integrative visualization and analysis platform to facilitate visually a...model which represents the plausible consensus 3D structure of the genome. Deltafeat...ances the integration of genome topology/physical structure...2371 days ago
PASA: Gene Structure Annotation and Analysis
PASA, acronym for Program to Assemble Spliced Alignments, is a eukaryotic genome annotation tool that exploi...nments of expressed transcript sequences to automatically model gene structures, and to maintain gene structure...2365 days ago
JPred4: A Protein Secondary Structure Prediction Server
JPred4 (http://www.compbio.dundee.ac.uk/jpred4) is the latest version of the popular JPred protein secondary structure prediction server which provides predictions by the JNet algorithm, one of the most accurate methods for secondary structure prediction.2362 days ago
Alien_Hunter : prediction of putative Horizontal Gene Transfer (HGT) events
Alien_hunter is an application for the prediction of putative Horizontal Gene Transfer (HGT)...red to fixed-order methods. Optionally the predictions can be parsed into a 2-state...e boundaries of the predicted regions. The predictions (embl format) can be automat...2353 days ago
PGAP-X: Extension on pan-genome analysis pipeline
PGAP-X is a microbial comparative genomic analysis platform with graphic interface. Serials of algorithms and method...ologies have been developed and integrated to analyze and visualize genomics structure...2337 days ago
MUMmer4: A fast and versatile genome alignment system
MUMmer4, a substantially improved version of MUMmer that addresses genome size constraints by changing the 32-bit suffix tree data structure...2326 days ago
GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bio...ols” which consists of several modules. If you are interested in gene prediction, have a look at GenomeTh...2322 days ago
Genome assembly stats plotting
A de novo genome assembly can be summarised b y a number of metrics, including: Overall assembly lengt...these presentations is generated using javascript from a common (JSON) data structure,...2302 days ago
Protein Subcellular Localization Prediction
Assigning subcellular localization to a protein is an important step towards elucidating its interaction partners, function, and potential role(s) in the cellular machine...2300 days ago