 | UGENEIntegrated Bioinformatics Tools |
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UGENE Description
Integrated Bioinformatics Tools UGENE is a free cross-platform genome analysis suite.It works perfectly on Linux, Windows or Mac OS and requires only a few clicks to install. Here are some key features of "UGENE": Main features: · Multiple sequence alignment using MUSCLE 3 and MUSCLE 4; · HMM profiles build and search, based on the source of HMMER 2 and HMMER 3; · PCR Primers design using Primer 3; · Protein secondary structure prediction using GOR IV and PSIPRED; · Search for restriction enzymes and integration with REBASE; · Extremely fast repeat finder; · Search for transcription factor binding sites using SITECON; · ORF finder; · Complete Smith-Waterman algorithm implementation. User Interface: · Visual and interactive genome browsing; · Chromatograms visualization; · 3D viewer for files in PDB and MMDB formats; · Multiple sequence alignment editor; · Easy to use workflow designer for custom computational workflows. · High performance computing in UGENE · Complete support of modern multicore processors and SSE instructions; · Out of the box support of modern GPUs using NVIDIA CUDA and ATI Stream; · Integrated solutions for Cell Broadband Engine; · Private solutions for supercomputers and distributed computing. Cooperation: · Can be used for education in schools and universities; · Features to be included into the next release are initiated by users; · UGENE team is ready for collaboration in related projects, both free or commercial. Requirements: · Qt What's New in This Release: New plugins: · MUSCLE 4 - a port of the newest tool for multiple sequence alignment by Robert C. Edgar; · CUDA Support - an utility plugin which makes possible using NVIDIA graphical processing units for accelerating computational algorithms. New features and bug fixes: · CUDA-accelerated Smith-Waterman algorithm is ready to use for Windows users; · The one of the most awaited features: sequence editing has been added; · Exporting annotation tables to CSV has been provided; · HMM2 models support has been added to HMM3; · And many others. See the changelog for a full list of improvements.
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