Open Source Python Scientific/Engineering Software - Page 73

Turku Event Extraction System (TEES) is a free and open source natural language processing system developed for the extraction of events and relations from biomedical text. It is written mostly in Python, and should work in generic Unix/Linux environments. Currently, the TEES source code repository still remains on GitHub at http://jbjorne.github.com/TEES/ where there is also a wiki with more information.

TI2BioP allows mainly the calculation of topological indices (spectral moments) derived from inferred and artificial 2D structures of DNA, RNA and proteins being possible to carry out a structure-function correlation irrespective of sequence alignments. TI2BioP version 3.0 is a python platform with a graphical interface designed for Windows, Linux and Mac OS.

Visit [http://www.gmfg.buffalo.edu] GMFG website for More information. A user guide for TITAN is made available on GMFG website. We strongly recommend all the users to register with GMFG website for future updates

Open Source Web-based Application for System & Software Requirement Management and Traceability

Metropolis is a visualization tool for TRANSIMS traffic simulation output. It specializes in viewing the dynamic outputs of the micro-simulator, such as vehicle motion and other time-varying data.

The TRANSIMS Studio application is an integrated development environment for the TRansportation ANalysis and SIMulation System (TRANSIMS). Components include a run time environment to execute TRANSIMS in parallel, as well as a full featured GUI.

The TUM personal robotics package is a collection of libraries that aims to offer methods for personal robotic assistants to operate successfully in indoor environments.

TaDaPro is a command-line utility to operate with numerical column tabulated data. It is intended for operations that are cumbersome to do by hand in a spreadsheet, and for transformations that have to be applied as a batch process on many files.

A set of Unix command line tools for quick and convenient batch processing of tabular text files (a.k.a., tab-delimited, csv, or flat file format) with a header line. Provides delimiter and compression detection, column reference by name. * tblmap: per-line ("map") computation: derive columns through an expression, delete, reorder, filter rows. * tblred: compute ("reduce") aggregations (e.g., sum, average) over groups defined by key columns. * tbldesc: Summarize columns in file (e.g., proportion of character/numeric values, min/mean/median/max, missing values, correlation with a target column). * tbljoin: Relational join without the need of pre-sorting and column matching. * ... See HostedApps/MediaWiki for examples.

Tag-find is a python script developed to clean up reads from a specific 12 nucleotides long tag sequence used during the cDNA library preparation for RNA-seq experiments.

Calculates groups of amino-acids that adjust to a mass difference (Python 3 version).

A library and associated applications for searching for patterns in protein structures and measuring geometric parameters.

The Taurus Project has *moved* to: https://github.com/taurus-org/taurus This SourceForge page is *outdated* and kept for historical reference only. Taurus is a python framework for control and data acquisition CLIs and GUIs in scientific/industrial environments. It supports multiple control systems or data sources: Tango, EPICS, ... New control system libraries and data sources can be integrated through plugins.

TeXPerfect plans to be a cross-platform, extensible, user-friendly yet expert-tunable visual TeX implementation. The most important feature will be a split screen (inspired by WordPerfect(R) Reveal Codes) showing the underlying TeX code.

Control a Tek TDS-820 remotely via a GPIB interface using linux-gpib, python, matplotlib and tkinter. The programming manual is used to generate an XML schema which is then used to assist in building extra functionality into the tkinter user interface.

Tequila is an abstraction framework for (variational) quantum algorithms. It operates on abstract data structures allowing the formulation, combination, automatic differentiation and optimization of generalized objectives. Tequila can execute the underlying quantum expectation values on state-of-the-art simulators as well as on real quantum devices.

A TextMap module for Python. The TextMap class can be used to emulate oldfashioned computer screens. It will have methods like writexy(x,y,text), input = readxy(x,y,text), clear(), scroll(x,y), change(coloroptions), settext(text), input = gettext()

TextTools is a freeware corpus linguistics tool developed in Python to aid in research. This program analyzes user-created corpora and displays information about word (token) frequency, n-grams, clusters, collocations, keyword in context (KWIC), and keyness. TextTools is designed to be user-friendly and intuitive and will run natively on Mac OS X.

BS Eagle Project is an open source black-oil simulator. The goal of this project is to provide a free access to the modern oil simulator to study new methods of simulation. The project has a modular architecture and open to modifications and extensions.

Processes boolean functions which can be provided either as a list of 0s and 1s or which can be provided as a formula in first-order logic (using disjunctive or conjunctive normal forms). Internally the Quine McCluskey algorithm is used.

The CCP1GUI project aims to develop a free, extensible Graphical User Interface to various computational chemistry codes developed by the worldwide academic community, with an emphasis on ab initio Quantum Chemistry codes.

A project to develop an integrated and open bioinformatics framework and environment.

A software toolkit that implements the CoSy Architecture Schema for developing integrated intelligent robotic systems. The toolkit focuses on supporting on a space of information-processing architectures based on shared working memories.

ESML is an interchange technology that utilizes external metadata to allow applications to plug and play seamlessly with Earth Science specific datasets in heterogeneous formats.