An object relational-mapping (ORM) library for Java
Hibernate is an Object/Relational Mapper tool. It's very popular among Java applications and implements the Java Persistence API. Hibernate ORM enables developers to more easily write applications whose data outlives the application process. As an Object/Relational Mapping (ORM) framework, Hibernate is concerned with data persistence as it applies to relational databases (via JDBC).
Data analysis and visualization for Excel, for free
XL Toolbox is a free Excel statistics addin that helps analyzing and presenting data: Smart custom error bars, chart design, chart export to TIFF; formula builder, transpose wizard, analysis of variance (ANOVA); automatic backups, workbook management and more.
ASP.NET MVC Based Portal CMS System to Create an Instant Website
DigiOz .NET Portal is a FREE web based portal CMS system written in ASP.NET MVC 5 in C# which uses a Microsoft SQL Database to allows webmasters to setup and customize an instant website for either business or personal use. List of Technologies used: - ASP.NET MVC 5 - Microsoft SQL Server - Bootstrap - HTML 5 - jQuery Demo Site: http://digioznetportal.digioz.net/ Source Code: https://sourceforge.net/p/digioznetportal/codenew/ci/master/tree/ Installation Instructions: https://sourceforge.net/p/digioznetportal/wiki/Home/ Help Wanted: If you are a developer, and wish to join the project, please email us at firstname.lastname@example.org.
An Academic Literature Suite
Docear (pronounced dog-ear) is what we call an “academic literature suite”. It integrates everything you need to search, organize and create academic literature in a single application: a digital library, reference manager, PDF and file manager, note taking and mind mapping. And the best: Docear works seemlessly with many existing tools like Mendeley, Microsoft Word, and Foxit Reader. Docear is free and open source, based on Freeplane, funded by the German Federal Ministry of Technology and developed by scientists from around the world, among others from OvGU, and the University of California, Berkeley.
The Helsinki Finite-State Transducer toolkit is intended for processing natural language morphologies. The toolkit is demonstrated by wide-coverage implementations of a number of languages of varying morphological complexity.
a parallel short-read error corrector for Illumina sequencing
Musket is an efficient multistage k-mer based corrector for Illumina short read data. This corrector employs the k-mer spectrum approach and introduces three correction techniques in a multistage workflow. Our performance evaluation results, in terms of correction quality and de novo genome assembly measures, reveal that Musket is consistently one of the top performing substitution-error-based correctors. In addition, Musket is multi-threaded using a master-slave model and demonstrates superior parallel scalability compared to all other evaluated correctors as well as a highly competitive overall execution time.
Arabic WordNet: A multi-lingual concept dictionary with mappings between word senses in Arabic and those in the Princeton WordNet (English) v2.0. Supports searching and browsing of Arabic and English terms.
For monitoring and control of distributed generation and consumption
SolarNetwork started as a simple set of client and server tools to collect and analyse solar power information from a distributed network of solar power collectors. SolarNetwork is now expanding into a set of tools to not only collect and analyse information, but to also control and influence behaviour of a distributed network of nodes where energy is being generated and/or consumed. The name implies it is for solar generated energy only, the SolarNetwork can in fact be used with any form of distributed energy.
This is a collection of (hopefully) useful productivity enhancements of Mentor Graphics IC-Station tools
One of the leading short-/long-read aligner to large genomes
CUSHAW2 is a fast and parallel gapped read alignment to large genomes, such as the human genome. The performance evaluation, by aligning simulated and real datasets to the human genome, shows that CUSHAW2 is consistently among the highest-ranked aligners in terms of alignment quality for both single-end and paired-end alignment, while demonstrating highly competitive speed. Furthermore, our aligner shows good parallel scalability with respect to the number of CPU threads.
Comprehensive Meta Prediction and Annotation Services for Proteins: The new all-in-one prediction tool that can be easily extended to include any SOAP/WSDL-enabled prediction servers. A concise user interface lets you use the results instantly.
JSwarn is a particle swarm optimization (PSO) package written in Java. Designed to require minimum effort to use (out of the box) while also highly modular.
CUSHAW3 is an open-source parallelized, sensitive and accurate short-read aligner. This aligner proposes a general approach to properly aligning both easy and hard reads to large genomes such as the human genome. Perform evaluation on alignment quality reals that CUSHAW3 consistently outperforms CUSHAW2, BWA-MEM, Bowtie2 and GEM in terms of single-end and paired-end alignment. Furthermore, our aligner has demonstrated better paired-end alignment performance than Novalign3 for short-reads with high error rates.
the first aligner introducing a complete paired-end alignment on GPUs
CUSHAW is a CUDA compatible short read aligner to large genomes, such as the human genome, based on the Burrows Wheeler transform.
Home Automation and Control System is a software which can control devices (using pc lpt port) at home from anywhere with any internet enabled device. This software drives a solid state relay by which we can control our home appliances.
Mobile Web Server is a portable HTTP Server. No Installation Required ! You can use it from any Folder, USB Key (Flash Drive) or CDROM (Read Only).
The fastest Smith-Waterman protein database search algorithm on GPUs
CUDASW++ software is a public open source software for Smith-Waterman protein database searches on Graphics Processing Units with CUDA. This software have been added to the NVIDIA Tesla Bio Workbench (http://www.nvidia.com/object/swplusplus_on_tesla.html
Suspicious Transaction Reporting
3i is an open source augmented reality system built on top of the Open Handset Alliance's "Android" smartphone platform.
BeagleSCI stands for Beagle Board for scientific computation and instrumentation. This project aims to make the Beagle Board a platform for sensing and simple data processing using its on-board or any peripheral hardware as add-ons.
Broccoli contains: -real and complex numbers,vectors,matrices,functions,polynomials -function minimizers,evolutionary algorithms,neural networks -pdfs,cdfs,max-likelihood,regression,DGPs,PRNGs,armax,garch,statistical estimation etc. -friendly JavaSwingGUI
Channel Usability Analytics using UIMA (Unstructured Information Management Architecture) that does things like analyze the user behavioral patterns in the channels followed by webserver-users.
UIMA solution for analysing web-server logs, that does things like analyze the user behavioral patterns in the channels followed by users from the log files, report current and the past behaviour of the visitors in selfservice systems.
We are going to implement a pipeline for named entity classification based on Lucene and GATE.
The first distributed and parallel short-read error corrector on GPUs
DecGPU (Distributed Error correction on GPUs) is a parallel and distributed error correction algorithm for large-scale short read assembly. It is implemented using CUDA C++ and MPI, running on a GPU cluster.