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BioJava

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  Analyzed about 18 hours ago

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 support, access to BioSQL and Ensembl databases, tools for making sequence analysis GUIs and ... [More] 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]

1.07M lines of code

13 current contributors

10 days since last commit

14 users on Open Hub

Moderate Activity
4.5
   
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Jmol

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  No analysis available

Jmol is a Java molecular viewer for three-dimensional chemical structures. Features include reading a variety of file types and output from quantum chemistry programs, and animation of multi-frame files and computed normal modes from quantum programs.

0 lines of code

0 current contributors

0 since last commit

12 users on Open Hub

Activity Not Available
4.0
   
I Use This
Mostly written in language not available
Licenses: lgpl

Galaxy Bioinformatics Platform

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  No analysis available

Galaxy allows you to do analyses you cannot do anywhere else without the need to install or download anything. You can analyze multiple alignments, compare genomic annotations, profile metagenomic samples and much much more... We provide a public Galaxy instance at https://usegalaxy.org where you ... [More] can do all this with nothing more than a web browser. [Less]

0 lines of code

164 current contributors

0 since last commit

12 users on Open Hub

Activity Not Available
5.0
 
I Use This
Mostly written in language not available
Licenses: AFL1-1

SHOGUN

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  Analyzed about 22 hours ago

The SHOGUN machine learning toolbox's focus is on large scale kernel methods and especially on Support Vector Machines (SVM). It comes with a generic interface for SVMs, features several SVM and kernel implementations, includes LinAdd optimizations and also Multiple Kernel Learning algorithms. ... [More] SHOGUN also implements a number of linear methods. It allows the input feature-objects to be dense, sparse or strings and of type int/short/double/char. It provides efficient implementations several kernels but also linear methods, hidden markov models etc. and interfaces to matlab,octave,python,R and has a cmdline interface and allows C++ extensions via a library. [Less]

271K lines of code

24 current contributors

3 months since last commit

11 users on Open Hub

Very Low Activity
5.0
 
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XNAT

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  No analysis available

XNAT is an open-source imaging informatics software platform dedicated to helping you perform imaging-based research. XNAT’s core functions manage importing, archiving, processing and securely distributing imaging and related study data. But its extended uses continue to evolve.

0 lines of code

14 current contributors

0 since last commit

6 users on Open Hub

Activity Not Available
5.0
 
I Use This
Mostly written in language not available
Licenses: bsd_2clau...

GenoViz

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  Analyzed about 2 hours ago

The GenoViz project provides tools for genomics data visualization. It consists of the following: 1) the GenoViz SDK, a library of re-usable components, 2) the Genometry data model to represent relationships between biological sequences, and 3) the Integrated Genome Browser (IGB, "igbee"), an ... [More] application built upon the GenoViz SDK and Genometry for visualization and exploration of genomes and corresponding annotations from multiple data sources. IGB supports the Distributed Annotation System (DAS) protocol, version 1 and 2, as well as other optimized binary data formats that are designed for efficient exploration of large, whole genome data sets. [Less]

187K lines of code

35 current contributors

9 months since last commit

4 users on Open Hub

Very Low Activity
5.0
 
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Apache Taverna

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Claimed by Apache Software Foundation No analysis available

The Taverna project aims to provide a language and software tools to facilitate easy use of workflow and distributed compute technology within the eScience community.

0 lines of code

0 current contributors

0 since last commit

4 users on Open Hub

Activity Not Available
4.6
   
I Use This
Mostly written in language not available
Licenses: apache_2

QuteMol

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  Analyzed about 21 hours 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 16 years since last commit

2 users on Open Hub

Inactive
0.0
 
I Use This

tranSMART

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  Analyzed about 19 hours 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 5 years since last commit

2 users on Open Hub

Inactive
5.0
 
I Use This

MOLGENIS model-driven database platform

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  Analyzed 1 day ago

MOLGENIS can be used to generate databases for life science experiments (micrroarray, mass spectrometry, genomics) having a web user interface, csv exchange format, and programmatic interfaces (web services, rest, and r-project). See NatRevGen 8.

484K lines of code

23 current contributors

3 months since last commit

1 users on Open Hub

Very Low Activity
4.0
   
I Use This
Licenses: No declared licenses