Projects tagged ‘bio-informatics’ and ‘bioinformatics’

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Projects tagged ‘bio-informatics’ and ‘bioinformatics’

Filtered by Project Tags bioinformatics bio-informatics

Refine results Project Tags biology (11) cross-platform (9) science (7) java (6) toolkit (6) c++ (6) scientific (5) phylogenetics (5) perl (5) cheminformatics (4) molecular_science (4) visualization (4)

[23 total ]

15 Users
BioPerl
   

Bioperl is a large, object-oriented toolkit of interacting perl modules useful for building bioinformatics solutions in Perl. The collection of modules in the bioperl-live repository contains the core ... [More] functionality. Additional packages for creating graphical interfaces (bioperl-gui), setting up persistent ORM storage in RDMBS (bioperl-db), running and parsing the results from hundreds of bioinformatics applications (bioperl-run), and software to automate bioinformatic analyses (bioperl-pipeline) are all available from our Subversion repository. [Less]
Created over 2 years ago.

10 Users
BioJava
   

BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It include objects for manipulating biological sequences, file parsers, DAS client and server ... [More] support, access to BioSQL and Ensembl databases, tools for making sequence analysis GUIs and powerful analysis and statistical routines including a dynamic programming toolkit. BioJava is used in several real-world bioinformatics applications and has been used for bioinformatics analysis in a number of published studies. [Less]
Created over 2 years ago.

6 Users
The Chemistry Development Kit
   

The Chemistry Development Kit (CDK) is a library of Java classes for chemo-, bioinformatics, computational chemistry, and chemometrics. It provides important algorithms like substructure search ... [More] , SMILES, Gasteiger charges, QSAR descriptor calculation, 3D structure generation, 2D layout and rendering, many IO formats, atom typing, and more. [Less]
Created over 3 years ago.

3 Users
Bioconductor

Bioconductor is an open source and open development software project for the analysis and comprehension of genomic data. The project was started in the Fall of 2001. The Bioconductor core team is ... [More] based primarily at the Fred Hutchinson Cancer Research Center. Other members come from various US and international institutions. [Less]
Created over 2 years ago.

2 Users
BioPython
   

The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology. It is a distributed collaborative effort to develop Python ... [More] libraries and applications which address the needs of current and future work in bioinformatics. The source code is made available under the Biopython License, which is extremely liberal and compatible with almost every license in the world. We work along with the Open Bioinformatics Foundation, who generously provide web and CVS space for the project. [Less]
Created over 2 years ago.

2 Users
QuteMol

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 ... [More] effects. QuteMol visualization techniques are aimed at improving clarity and an easier understanding 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]
Created over 2 years ago.

2 Users
nexml

XML-based data exchange standard for phylogenetics. In honor of the commonly-used "nexus" flat file format, the working title for this standard is nexml.
Created over 2 years ago.

1 Users
BigRedBin
 

BigRedBin is a web-based tool designed to pre-process metabolomics data generated by a mass spectrometer in an attempt to increase the signal-to-noise ratio. This is accomplished by using information ... [More] from multiple technical replicates of the same sample to identify peaks detected consistently in given sample. BigRedBin then places peaks into bins of a given size to allow the data to be analysed using their preferred software e.g. PCA. [Less]
Created about 1 year ago.

1 Users
BioDAS

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 ... [More] multiple servers. Data distribution, performed by DAS servers, is separated from visualization, 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]
Created about 1 year ago.

1 Users
IntAct
 

IntAct is an open source package to store and manipulate molecular interaction data.
Created over 3 years ago.
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