Open Hub
Open Hub

Tags : Browse Projects

Select a tag to browse associated projects and drill deeper into the tag cloud.

  • bioinformatics (449)

    jksrc

    Compare

      Analyzed 27 days ago

    3.45M lines of code

    21 current contributors

    2 months since last commit

    2 users on Open Hub

    Very High Activity
    0.0
     
    0 Reviews
    I Use This
    Mostly written in C
    Licenses: No declared licenses
    Tags bioinformatics

    Phenotype Database

    Compare

      No analysis available

    Phenotype Database is a collection of open source projects that work together as a data warehouse for bioinformatics data, specifically '*omics' data. It consists of a hub project, the General Study Capture Framework, and several spoke projects ('modules') that contain various types of biological ... [More] data. The components communicate via HTTP JSON messages. Phenotype Database is a project supported by various organizations and networks, a.o. the European Nutrigenomics Organisation, Netherlands Metabolomics Centre and Netherlands Bioinformatics Centre. [Less]

    0 lines of code

    1 current contributors

    0 since last commit

    2 users on Open Hub

    Activity Not Available
    0.0
     
    0 Reviews
    I Use This
    Mostly written in language not available
    Licenses: apache_2
    Tags bioinformatics grails jquery phenotype web

    tranSMART

    Compare

      Analyzed 26 days ago

    tranSMART is an OSS for translational research. The tranSMART Foundation (www.transmartfoundation.org) coordinates the community that is developing around the tranSMART platform.

    1.5M lines of code

    0 current contributors

    over 6 years since last commit

    2 users on Open Hub

    Inactive
    5.0
     
    0 Reviews
    I Use This
    Mostly written in SQL
    Licenses: gpl3
    Tags bioinformatics datawarehouse healthcare medicine pharmaceutical research translational

    Bio::Phylo

    Compare

      Analyzed 27 days ago

    Phylogenetic analysis using perl.

    126K lines of code

    1 current contributors

    over 6 years since last commit

    2 users on Open Hub

    Inactive
    0.0
     
    0 Reviews
    I Use This
    Mostly written in Perl
    Licenses: Artistic_..., gpl
    Tags bio-informatics bioinformatics biology cross-platform perl phylogenetics science toolkit

    LabKey Server

    Compare

      Analyzed 26 days ago

    LabKey Server is open source software that helps scientists manage, analyze and share complex datasets. It supports tandem mass spectrometry, flow cytometry, assays for neutralizing antibodies, Luminex, observational studies, and secure, web-based collaboration. The software is modular ... [More] , configurable, and customizable. Written in Java, it can be installed in your institution on any modern hardware and operating system. It is designed to integrate with your existing systems, instruments, and work flows, and to be readily adapted by skilled programmers to novel methods of inquiry. The project is under active development by a team of professional software engineers and a community of active contributors. We release new versions about four times per year. [Less]

    0 lines of code

    0 current contributors

    0 since last commit

    2 users on Open Hub

    Activity Not Available
    5.0
     
    0 Reviews
    I Use This
    Mostly written in language not available
    Licenses: apache_2
    Tags assay bioinformatics extjs flowcytometry java proteomics tomcat

    BioMart

    Compare

      Analyzed 26 days ago

    BioMart is a query-oriented data management system developed jointly by the European Bioinformatics Institute (EBI) and Cold Spring Harbor Laboratory (CSHL). The system can be used with any type of data and comes with a range of query interfaces and administration tools, including 'out of the ... [More] box' website that can be installed, configured and customised according to requirements. The system simplifies the task of creation and maintenance of advanced query interfaces backed by a relational database and it is particularly suited for providing the 'data mining' like searches of complex descriptive (e.g. biological) data. BioMart can work with existing data repositories by converting them to a required BioMart format as well as newly created databases. [Less]

    106K lines of code

    0 current contributors

    over 16 years since last commit

    2 users on Open Hub

    Inactive
    4.0
       
    0 Reviews
    I Use This
    Mostly written in Java
    Licenses: lgpl
    Tags api bioinformatics database data_integration data_mining java mysql oracle perl postgresql schema toolkit 1 more...

    BioDAS

    Compare

      Analyzed 26 days ago

    The Distributed Annotation System (DAS) defines a communication protocol used to exchange biological sequence annotations. DAS is a client-server system in which a single client integrates data from multiple servers. Data distribution, performed by DAS servers, is separated from visualization ... [More] , which is done by DAS clients. Little coordination is needed among the various information providers. DAS is heavily used in the genome bioinformatics community for sharing information about gene and protein sequences as well as protein structures. [Less]

    76.5K lines of code

    0 current contributors

    about 14 years since last commit

    2 users on Open Hub

    Inactive
    0.0
     
    0 Reviews
    I Use This
    Mostly written in Java
    Licenses: No declared licenses
    Tags annotation bio-informatics bioinformatics biology client cross-platform data_formats data_integration distributed genomics science scientific 2 more...

    Adun

    Compare

      Analyzed 26 days ago

    Adun currently includes tools for the calculation and analysis of several dynamic properties of macromolecules. Several force fields have already been implemented (Enzymix, Charmm and AMBER) and a sophisticated distributed database of simulations results that can be directly accessed by the program ... [More] is in development. Simulations methods currently include Newtonian and Langevin molecular dynamics. [Less]

    222K lines of code

    0 current contributors

    over 12 years since last commit

    2 users on Open Hub

    Inactive
    5.0
     
    0 Reviews
    I Use This
    Mostly written in Objective-C
    Licenses: gpl
    Tags bioinformatics cocoa gnustep objective_c science scientific

    QuteMol

    Compare

      Analyzed 26 days ago

    QuteMol is an open source (GPL), interactive, high quality molecular visualization system. QuteMol exploits the current GPU capabilities through OpenGL shaders to offers an array of innovative visual effects. QuteMol visualization techniques are aimed at improving clarity and an easier understanding ... [More] of the 3D shape and structure of large molecules or complex proteins. * Real Time Ambient Occlusion * Depth Aware Silhouette Enhancement * Ball and Sticks, Space-Fill and Liquorice visualization modes * High resolution antialiased snapshots for creating publication quality renderings * Automatic generation of animated gifs of rotating molecules for web pages animations * Interactive rendering of large molecules and protein (>100k atoms) * Standard PDB input [Less]

    5.96K lines of code

    0 current contributors

    over 17 years since last commit

    2 users on Open Hub

    Inactive
    0.0
     
    0 Reviews
    I Use This
    Mostly written in C++
    Licenses: gpl
    Tags 3d 3d_rendering bio-informatics bioinformatics c++ cheminformatics chemistry molecular_science research visualization

    pysam

    Compare

      Analyzed 26 days ago

    Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

    259K lines of code

    14 current contributors

    2 months since last commit

    2 users on Open Hub

    Low Activity
    4.0
       
    0 Reviews
    I Use This
    Mostly written in C
    Licenses: mit
    Tags bioinformatics python sequencing