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The application Bio7 is an integrated development environment for ecological modelling and contains powerful tools for model creation, scientific image analysis and statistical analysis. The application itself is based on an RCP-Eclipse-Environment (Rich-Client-Platform) which offers a huge flexibility in configuration and extensibility because of its plug-in structure and the possibility of customization.167 weekly downloads
A easy to use set of utilities for bioinformatics that work out of the box without having to import or include too many other libraries, these will form a workbench for the everyday work of a bioinformatician.
BioBuilder was a framework for building protein-centric databases using the Zope2. It's not maintained anymore. If you want to have a look to the latest snapshot of the code you can get it at http://biobuilder.sourceforge.net/ Contact us if you want to
We describe a simple XML format to share text documents and annotation96 weekly downloads
BioImageXD - free open source software for analysis, processing and 3D rendering of multi dimensional, multi data channel, time series image data from microscopy and other sources.107 weekly downloads
A tool for generating metagenomic metadata in GCDML format, and for submitting it to metagenomic genomic databases such as CAMERA. http://camera.calit2.net Written in Python with GTK based GUI.
BioMa is a specimen based Biodiversity database Manager. It is designed to store, organize, and manipulate biodiversity-related scientific data, either for the purposes of museums, scientific collections, or research projects.1 weekly downloads
This software screens a given peak list against web based NMR databases (nmrshiftdb, HMDB...) and return possible molecules. It also take a given molecule to return expected peaks list.
BioPythonGUI is a Graphical User Interface of BioPython. The goal of the project is "Everyone (not only programmers) can use BioPython with BioPythonGUI".
Python Classes to read and process PubMed or MedLine xml record files, for use in Natural Language Processing modules. They can handle the XML format used by PubMed and MedLine services, for example as returned by eutils online services.
Processing and analysis of Small Angle X-ray Scattering (SAXS) data.241 weekly downloads
This will provide a framework for inter-related bioinformatics data, editing and analysis software, where the nodes are the data repositories (ZODB) and the connections are analysis/editing software. Nodes and connections can be added via plugins.
Biologic Institute's Stylus simulation software suite. (See the SVN repository for source code.)
Biological Annotation Tool is a general-purpose high speed environment for manipulating biological sequence annotations in multiple input and output formats. A plugin-style API permits much extensibility.1 weekly downloads
BioCM is Biological Content Manager: a Zope/Plone/Biopython product to manage, share and publish biological annotations on the web.
A collection of corpus and access routines for developing biological literature analysis systems.
Bioscape is a proposed collaborative framework for the generation consolidation and exchange of molecular biological text mining results.
BioSig is a software library for processing of biomedical signals (EEG, ECG, etc.) with Matlab, Octave, C/C++ and Python. A standalone signal viewer supporting more than 30 different data formats is also provided.350 weekly downloads
Biskit is a python library for structural bioinformatics research. It simplifies the analysis of macromolecular structures, protein complexes, and molecular dynamics trajectories and offers a platform for the rapid integration of external programs. PLEASE NOTE: The Biskit source code as well as any later releases are now hosted on https://github.com/graik/biskit The sourceforge repo is only kept here for reference.1 weekly downloads
Bit Warriors is an AI programming game.
Bitmap Gauger is a multipurpose tool for determining coordinates, distances, areas, radii and angles in bitmaps. User defined scaling and coordinate transformations are provided.1 weekly downloads
Automated leaf area estimation from scanned leaf images1 weekly downloads
Blaze is an application launcher that distinguishes from amongst the others by being able to automate recurrent tasks performed in the file-system or even any application on Microsoft Windows.30 weekly downloads
This is a Python script for Blender which uses short (quaternion-based, floretion-based) algorithms to draw curves in space. The user can create new shapes and curves by setting a variety of parameters.2 weekly downloads
Multibool function is slow ;)2 weekly downloads