GNU TeXmacs is a free wysiwyw (what you see is what you want) editing platform with special features for scientists. The software aims to provide a unified and user friendly framework for editing structured documents with different types of content: text, mathematics, graphics, interactive content. TeXmacs can also be used as an interface to many external systems for computer algebra, numerical analysis, and statistics. New presentation styles can be written by the user and new features can be added to the editor using Scheme.
white_dune is a graphical VRML97/X3DV editor, simple NURBS/Superformula 3D modeller, animation tool, and VRML97/X3DV commandline compiler in development. VRML97 (Virtual Reality Modeling Language) is the ISO standard for displaying 3D data over the Web via browser plugins ("HTML for realtime 3D"). X3DV is the direct successor of VRML97. VRML97 and X3DV have support for animation, real-time interaction, and multimedia (images, movies, and sounds). white_dune can read, create, and display VRML97/X3DV files and let the user change the scenegraph/fields. It also has support for stereoscopic view via "quadbuffer"-capable stereo visuals, and support for 3D input devices like a joystick, spaceball, or magnetic tracker.
Asymptote is a powerful descriptive 2D and 3D vector graphics language for technical drawing, inspired by MetaPost but with an improved C++-like syntax. It provides for figures the same high-quality level of typesetting that LaTeX does for scientific text. Asymptote is a programming language as opposed to just a graphics program. It can exploit the best features of script (command-driven) and graphical user interface (GUI) methods. High-level graphics commands are implemented in the language itself, allowing them to be easily tailored to specific applications.
The cb2Bib is a tool for rapidly extracting bibliographic references from email alerts, journal Web pages, and PDF files. It facilitates the capture of single references from unformatted and non standard sources. Output references are written in BibTeX. Article files can be easily linked and renamed by dragging them onto the cb2Bib window. Additionally, it permits editing and browsing BibTeX files, citing references, searching references and the full contents of the referenced documents, inserting bibliographic metadata to documents, and writing short notes that interrelate several references.
The NCBI C++ Toolkit provides portable libraries and applications for assisting genetic science. These include libraries for networking, SQL and BerkeleyDB access, CGI and HTML handling, ASN.1 and XML handling, sequence alignment engines, sequence retrieval engines, BLAST database engines, FLTK and OpenGL graphics toolkits, and basic system utilities.
ASCIIMathML is a script that converts calculator-style ASCII math notation (and many LaTeX formulas) to Presentation MathML while your Web page loads. It works with HTML and XHTML files in Mozilla/Firefox/Netscape 7+ browsers, as well as in Internet Explorer 6 with MathPlayer. For example, the solutions for the equation 'ax^2+bx+c=0' are expressed in the HTML file as '(-b +- sqrt(b^2 - 4ac))/(2a)', and display as nicely formatted MathML. The script can be easily used in wikiservers and blogs, as a rudimentary MathML editor (with instant preview), and to preview math formulas as they are typed into a Web page input area.
AntFlow builds upon Apache Ant to provide a new approach to simplifying system automation that uses pipelines of hot folders chained together to perform a given task. Using XML, it associates an automated task such as data transfer, encryption, or XML processing with a directory on the local system. Whenever a file is copied or written into the hot folder, the associated task is executed and the file is moved to the next hot folder in the pipeline for further processing.
Ellogon is a multi-lingual, cross-platform, general-purpose language engineering environment, developed in order to aid both researchers who are doing research in computational linguistics, as well as companies who produce and deliver language engineering systems. As a language engineering platform, it offers an extensive set of facilities, including tools for processing and visualising textual/HTML/XML data and associated linguistic information, support for lexical resources (like creating and embedding lexicons), tools for creating annotated corpora, accessing databases, comparing annotated data, or transforming linguistic information into vectors for use with various machine learning algorithms.
Erudite is an application for training and testing back propogation neural networks using the ANNeML (Artifical Neural Network Markup Language) XML format. It supports testing and training neural nets with CSV files and has support for randomized training sets, optional adapting learning rate, sigmoid or hyperbolic tangent transfer functions, optional bias and weight adjustment locking, and more.