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46 programs for "library"

  • 2018 Thomson Reuters Top 100 Global Tech Leaders 2018 Thomson Reuters Top 100 Global Tech Leaders Icon
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  • OpenMS

    An open source framework for LC-MS based proteomics and metabolomics. OpenMS offers data structures and algorithms for the processing of mass spectrometry data. The library is written in C++.

  • Systems Biology Markup Language (SBML) Icon

    Systems Biology Markup Language (SBML)

    A file format for exchanging computational models in systems biology

    The Systems Biology Markup Language (SBML) is an XML-based description language for representing computational models in systems biology. Visit the project web site to learn more.

  • CBFlib Icon

    CBFlib

    CBFLIB is a library of ANSI-C functions providing a simple mechanism for accessing Crystallographic Binary Files (CBF files) and Image-supporting CIF (imgCIF) files. The CBFLIB API is loosely based on the CIFPARSE API for mmCIF files.

    Downloads: 91 This Week Last Update: See Project
  • Antimony Icon

    Antimony

    Antimony is a human-readable, human-writable model definition language

    Antimony is a human-readable, human-writable model definition language. libAntimony is a library that will read and write Antimony and SBML files and provides an API for other programs to import Antimony models into their own internal formats.

  • ProteoWizard Icon

    ProteoWizard

    The ProteoWizard Library is a set of software libraries and tools for rapid development of proteomics data analysis software. The libraries are cross-platform and built from the ground up using modern C++ techniques.

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  • faif Icon

    faif

    C++ header only library with AI and bioinformatics algorithms

    C++ header only library, small and fast; Naive Bayesian Classifier, Decision Tree Classifier (ID3), DNA/RNA nucleotide second structure predictor, timeseries management, timeseries prediction, generic Evolutionary Algorithm, generic Hill Climbing algorithm and others.

    Downloads: 2 This Week Last Update: See Project
  • Moose

    Multiscale Neuroscience and Systems Biology Simulator

    Moose is the core of a modern software platform for the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, large networks, and systems-level processes. We have moved Github.com. This should be your source for the latest version of the code.

    Downloads: 2 This Week Last Update: See Project
  • MuffinEC

    Multi-technology, INDEL aware error correction for NGS data

    MuffinEC is an error correction software capable of handling all types of errors (insertion deletions, mismatches and unknown bases). It officially supports four technologies (Illumina, 454, ion Torrent and PacBio - experimental) and it also has a generic setup for others (old and/or new). It is released under LGPL version 3.0. MuffinEC can use multicore systems, thanks to its OpenMP implementation. We are developing the 2nd version of MuffinEC. The beta version is already available online....

    Downloads: 2 This Week Last Update: See Project
  • 3v: Voss Volume Voxelator

    Several RNA and protein structure volume calculation tools.

    Downloads: 1 This Week Last Update: See Project
  • RoadRunner: SBML Simulation Environment

    RoadRunner represents a state-of-the-art simulation library for SBML models. It is fast, portable and accurate. This projects hosts the library and tools using the library.

    Downloads: 0 This Week Last Update: See Project
  • nullhap

    Application to estimate haplotypes and other genetics data, based on maximum likehood approach. It can handle present-absent as well as multiallelic loci.

    Downloads: 0 This Week Last Update: See Project
  • bioweb Icon

    bioweb

    polyglot language framework to analyze genetic data

    polyglot framework using Python/C++/JavaScript to fast develop applications to analyze biological sequences

    Downloads: 0 This Week Last Update: See Project
  • fast_count_multi

    Extremely fast NGS read counter

    ... bam_file(s) > output Requires bamtools API library at run time, and c++0x for compile. git clone https://github.com/pezmaster31/bamtools cd bamtools mkdir build cd build cmake .. make export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:path to/lib g++ -I bamtools/include/ -L bamtools/lib/ -o fast_count_multi fast_count_multi.cpp -lz -lbamtools -fpermissive -pthread -std=c++0x

    Downloads: 0 This Week Last Update: See Project
  • Downloads: 1 This Week Last Update: See Project
  • General Hidden Markov Model Library

    The General Hidden Markov Model Library (GHMM) is a C library with additional Python bindings implementing a wide range of types of Hidden Markov Models and algorithms: discrete, continous emissions, basic training, HMM clustering, HMM mixtures.

  • Flexbar Icon

    Flexbar

    flexible barcode and adapter removal for sequencing platforms

    Flexbar moved to https://github.com/seqan/flexbar The program Flexbar processes high-throughput sequencing data efficiently. It demultiplexes barcoded runs and removes adapter sequences. Moreover, trimming and filtering features are provided. Flexbar supports next-generation sequencing data in fasta and fastq format, e.g. from the Illumina platform. Reference: Matthias Dodt, Johannes T. Roehr, Rina Ahmed, Christoph Dieterich: Flexbar — flexible barcode and adapter processing for...

  • Gen3D Icon

    Gen3D

    A tool for 3D genome and chromosome structural model construction

    Gen3D is an application designed to determine three-dimensional genome and chromosome models. It uses chromosomal contact data to construct three-dimensional conformations. This method can generate three-dimensional chromosomal models satisfying a large portion of chromosomal contacts. The software is developed in Prof. Jianlin Cheng's Bioinformatics, Data Mining and Machine Learning Laboratory in the Computer Science Department at the University of Missouri - Columbia, USA. The project is...

    Downloads: 0 This Week Last Update: See Project
  • GenoEye

    a genome visualization library

    Downloads: 0 This Week Last Update: See Project
  • RasMol

    The SourceForge OpenRasMol project is an adjunct to the RasMol and OpenrasMol project at http://rasmol.org. It is hoped that the SourceForge OpenRasMol project will provide a convenient focal point for active collaborative contributions.

  • MAVEN

    Elastic network models (ENMs) have been shown to generate the dominant functional equilibrium motions of biomolecules quickly and efficiently. MAVEN simplifies ENM generation, allows for diverse models to be used, and facilitates useful analyses.

    Downloads: 0 This Week Last Update: See Project
  • NEXUS Class Library (NCL)

    The Nexus Class Library (NCL) is a C++ library for interpreting data files created according to the NEXUS file format used in phylogenetic systematics and molecular evolution.

    Downloads: 14 This Week Last Update: See Project
  • OsiriX - moved to Github Icon

    OsiriX - moved to Github

    DICOM Viewer

    The project has moved to GitHub: https://github.com/pixmeo/osirix

  • Gdraw

    An app and a Perl library for genome feature drawing

    Gdraw is an genome visualization tool, including a GUI application and a Perl library. The GUI application creates the drawing interactively. It can also create the drawing by import annotated sequence files (such as Genbank, EMBL). Its backend library can be used in user-written perl scripts to create highly customized drawings.

    Downloads: 0 This Week Last Update: See Project
  • DeltaQt Icon

    DeltaQt

    Parser for DELTA files (Qt, C++)

    DeltaQt is part of the FreeDelta project and aims to implement a parser for DELTA (DEscription Language for TAxonomy) files using the Qt core framework. DeltaQt is a library intended to be incorporated into other applications that require the ability to parse DELTA files.

    Downloads: 0 This Week Last Update: See Project
  • NeMo

    NeMo is a high-performance spiking neural network simulator which simulates networks of Izhikevich neurons on CUDA-enabled GPUs. NeMo is a C++ class library, with additional interfaces for pure C, Python, and Matlab.

    Downloads: 5 This Week Last Update: See Project
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