Unipro UGENE 1.9.5

Size 2.465 MB   0 seeders     Added 2011-07-27 00:19:57

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Unipro UGENE is a free visual software solution for DNA and protein sequence analysis. UGENE provides customizable tools for visualization, analysis, annotation of genetic sequences.   Features:  Integrated tools Multiple sequence alignment using MUSCLE 3, KAlign, Clustal; HMM profiles build and search, based on the source of HMMER 2 and HMMER 3; PCR Primers design using Primer 3; Cloning in silico capabilities; Queries to NCBI BLAST and CDD databases; Protein secondary structure prediction using GOR IV and PSIPRED; Phylogenetic analysis with Phylip; Search for restriction enzymes and integration with REBASE; Extremely fast repeat finder; DNA short reads to reference alignment using Bowtie; De novo assembly with CAP3; Search for transcription factor binding sites using SITECON; Protein back translation; ORF finder; Complete Smith-Waterman algorithm implementation; Support for external tools: BLAST+, MAFFT, T-Coffee; Assembly Browser — a shiny BAM viewer.   User interface Visual and interactive genome browsing including circular plasmid view; Multiple alignment editor; Chromatograms visualization; 3D viewer for files in PDB and MMDB formats with anaglyph stereo mode support; Phylogenetic tree viewer; Dot plot visualization; Query designer enables search for complex annotation patterns; 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; Support for cloud computing: running computational tasks on Amazon EC2 cloud; Support for supercomputers and distributed computing.   Cooperation Can be used for education purposes 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
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