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diff --git a/academic/ugene/README b/academic/ugene/README new file mode 100644 index 0000000000..713391c36c --- /dev/null +++ b/academic/ugene/README @@ -0,0 +1,40 @@ +Unipro UGENE is a multiplatform open-source software with the main +goal of assisting molecular biologists without much expertise in +bioinformatics to manage, analyze and visualize their data. + +UGENE integrates widely used bioinformatics tools within a common user +interface. The toolkit supports multiple biological data formats and +allows the retrieval of data from remote data sources. It provides +visualization modules for biological objects such as: + +- annotated genome sequences; +- Next Generation Sequencing (NGS) assembly data; +- multiple sequence alignments; +- phylogenetic trees; +- 3D structures. + +Most of the integrated algorithms are tuned for maximum performance by +the usage of multithreading and special processor instructions. UGENE +includes a visual environment for creating reusable workflows that can +be launched on local resources or in a High Performance Computing +(HPC) environment. UGENE is written in C++ using the Qt framework. The +built-in plugin system and structured UGENE API make it possible to +extend the toolkit with new functionality. + +CITING: +If you use UGENE in your work, please quote this publication: +Unipro UGENE: a unified bioinformatics toolkit +Konstantin Okonechnikov, Olga Golosova, Mikhail Fursov, the UGENE team +Bioinformatics 2012 28: 1166-1167 doi: 10.1093/bioinformatics/bts091 + +NOTE! +While not needed for building of UGENE, the dependencies listed as +"REQUIRED" are highly recommended for the complete functionality of +the program. UGENE will also drive spidey if you have it installed, +but keep in mind that it is available only as a 32-bit binary. + +NOTE ABOUT CUDA: +UGENE is built without CUDA support and CUDA-BLAST is not included +among the "REQUIRED", either. Simply, I do not have the hardware. If +someone is interested in such functionality and can offer help with +the script, please contact me. |