Search Results for "java open source" - Page 60
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Showing 2101 open source projects for "java open source"
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IGRAFU is an open source program to integrate solutions to rebuild phylogenetic trees. It supports various well-known algorithms, such as Maximum Parsimony and Distance-matrix methods.
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The goal of this project is to make a biologic pathway simulation / emulation application. The ultimate goal is to feed different file types to the application and configure a pathway and its behaviour.
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This program has been written having in mind to create an useful tool to evaluate the Motor Evoked Potentials (MEPs) generated by Transcranial Magnetic Stimulation (TMS) and recorded with the program "Signal" (version 2.xx).
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prot3d is aimed to get three-dimensional folding possibilities of a peptide given its aminoacid sequence.
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splitsmb is a standalone application for calculating topological convergence diagnostics on MrBayes tree-output files (unrooted only at this point). It calculates the average- and maximum standard deviations of partition frequencies between runs.
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MatrixGen is a Bioinformatics application used to generate scoring matrices from analysis of aligned Amino Acid and DNA data sets. These matrices can then be used by Clustal to generate more accurate alignments. Based upon the Henikoff BLOSUM method.
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Structlab is a machine learning C++ framework for structured domains, which provides a toolbox of learning methods and tools for preprocessing and visualization. It also provides a GUI to setup elaborate experiments in a visual and intuitive way.
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MIREAP is a tool which can be used to identify both known and novel microRNAs from small RNA libraries deeply sequenced by Solexa/454/Solid technology.
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HaploPainter - a pedigree and haplotypes drawing tool written in Perl/Tk. The software processes pedigree information in standard linkage formats combining haplotype information outputs from Simwalk, Genehunter, Allegro and Merlin.
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Modified ssSNPer. Phenotype info for EBV-LCLs (HAPMAP CEU) for a minor histocompatibility antigen (mHag) specific T cell is input. Output is the region containing the mHag. A step-by-step read-me will be included.Email r.m.spaapen@umcutrecht.nl for help.
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Data and animal management software for large-scale phenotype screening Used by GNF for mouse ENU mutagenesis project. Data visualization & analysis, animal husbandry management, & automated QTL mapping. Usable as stand alone animal husbandry system.
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The NCD Toolkit is a PHP application to collaboratively manage biological collection metadata that corresponds to the TDWG TDWG Natural Collection Description (NCD v0.8) format. The project was initially funded by GBIF.
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Cytoprophet is a Cytoscape plugin that helps researchers infer new potential protein (PPI) and domain (DDI) interactions. Users input a set of proteins and retrieve a network of plausible protein and domain interactions with a score.
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Open Screening Environment is a open source system for management of High Throughput Screening related experiments. The platform consists of new research tools that will enhance significantly management and analysis of HTS data. More information can be f
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The software implements a fast optimal co-folding of pairs of RNA sequences. The algorithm is described in details in the paper "A faster algorithm for RNA co-folding" by Ziv-Ukelson, Gat-Viks, Wexler, and Shamir.
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A simple Java application for the analysis and identification of gene networks. ProPesca takes as input shorts temporal series of realtime-PCR expression levels and it clusters genes that exhibit either similar or specular behaviors.
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SPKtool is a toolbox developed on MATLAB which enables a user to perform spike (action potential of neurons) detection, spike sorting (manually or automatically) and spike train analysis.
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EMMA 2 is web-based server application for management, annotation, and analysis of microarray data. It provides mapping of gene expression data onto pathway data extensible analysis and visualization functions and MAGE-ML support.
