Search Results for "c source code" - Page 24
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Showing 809 open source projects for "c source code"
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Zerg is a very fast BLAST parser library written in C with the help of the Flex lexical analyzer generator.
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Contains various algorithms that maps short reads produced from Illumina (Solexa) Genome Analyzer, or Applied Biosystems' SOLiD System, to a reference sequence or a set of reference sequences.
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The program predicts the optimal folding of all consecutive substrings of length L of an RNA sequence of length N in O(NL) time. The algorithm is based on two papers: Wexler, Zilberstein, Ziv-Ukelson (2007), and Horesh, Wexler, Ziv-Ukelson ,Unger (2008)
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Java API for implementing any kind of Genetic Algorithm and Genetic Programming applications quickly and easily. Contains a wide range of ready-to-use GA and GP algorithms and operators to be plugged-in or extended. Includes Tutorials and Examples.
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DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV
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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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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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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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4-Dimensional Cell Simulator (4DiCeS) is a framework on hybrid (stochastic and deterministic) modeling and simulation of (whole) cell environments in 4D. The framework may incorporate any reaction and diffusion algorithms applicable in a 4D grid layout.
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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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Lucy is a program for DNA sequence quality trimming and vector removal. Its purpose is to process DNA sequence data acquired from DNA sequencers to prepare the data for downstream processing applications such as genome assembly.
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The purpose of Mitrion-C Open Bio Project is to develop FPGA accelerated bioinformatics applications for the Mitrion Virtual Processor. The first accelerated application is NCBI BLAST.
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epiPATH is a platform to store and analyze evolutionary, population and epidemiological data from infectious diseases. It is designed to aid users in daily work with data generated in sequencing projects as well as clinical and epidemiological data.
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Next-Gen Scaffolder is a scaffolder for de novo genome assembly projects, taking contigs and paired end libraries to produce high-quality scaffolds. It is compatible with 454 reads.
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Protein Mass Spectrometry: cprobid is a software for identification peptides from MS/MS spectra. The output of this program is compartable with TransProteomic Pipeline software package (sashimi project).
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sbmlop is a command-line utility to create, view and manipulate SBML (the Systems Biology Markup Language). It is ideally suited for operating on large batches of SBML files, and can extract and modify information using regular expressions.
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A novel algorithm to layout the contigs with more than one reference genomes at a time using global searches
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Celsius is a data warehouse that provides web services for upload, archival, download, annotation, quantification, and normalization of all Affymetrix microarray platforms.
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This set of C++ classes allows the user to load data from custom Affymetrix microarrays. This is a good platform for new method development and it contains several common normalization algorithms.
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Basic implementation of K-nearest neighbour Algorithm and the application of KNN to classify protein sequences as transmembrane beta barrel or non-transmembrane beta barrel on the basis of whole sequence amino acid composition given as input.
