Open Source Python Scientific/Engineering Software - Page 32

Latex editor with document structure tree view and project handling. Latex output allows direct jump to warnings/errors. Projects folders gives support for figures/graphs. Editor component includes usual features like search/replace and syntax highlight.

Doceval is a software that allows to discover the documentation included in a tarball. Basically it serves to identify if a given software project has doc at all and helps with a report to evaluate how much documentation it has and how good it is.

Donatus is an on-going project consisting of Python, NLTK-based tools and grammars for deep parsing and syntactical annotation of Brazilian Portuguese corpora. It includes a user-friendly graphical user interface for building syntactic parsers with the NLTK, providing some additional functionalities.

Objective: The program is being developed for three main purposes: A. Dose assessment after acute whole body exposure. B. Dose assessment in partial body exposure C. Dose assessment after protracted and fractioned exposure 2. Applicability The following DNA lesions can be investigated with the help of the program: A. Dicentrics B. γ-H2AX foci C. Micronuclei D. PCC fragments It is planned to include Comet assays as well RICA assays in the future.

DrPangloss is a python implementation of a three operator genetic algorithm, complete with a java swing GUI for running the GA and visualising performance, generation by generation

The Dragon Fire compiler takes a new, 21st century, look at the Dragon (i.e. Dragon Book). No longer impenetrable to the programmer, this compiler is open and available to them. You control the Dragon, and get Dragon insight into your programs.

DragonFire is a compilation of various mathamatical formulas and theorms from algebra (and soon, Calculus). It shows users the formula for them to learn/use, or lets them enter data for DragonFire to compute.

An extensible network forensic analysis framework. Enables rapid development of plugins to support the dissection of network packet captures. This is a major framework update to Dshell. Plugins written for the previous version are not compatible with this version, and vice versa. By extension, dpkt and pypcap have been replaced with Python3-friendly pypacker and pcapy (respectively). Enables development of external plugin packs, allowing the sharing and installation of new, externally-developed plugins without overlapping the core Dshell libraries. Plugins can now use all output modules, available to the command line switch, -O. That does not mean every output module will be useful to every plugin (e.g. using netflow output for a plugin that looks at individual packets), but they are available.

This project contains Python scripts usable for a dual transcript-discovery approach that improves the delimitation of gene features from RNA-seq data in the chicken model. Documentation: http://bio.biologists.org/content/biolopen/suppl/2018/01/17/bio.028498.DC1/BIO028498supp.pdf Citation: Orgeur M., Martens M., Börno S. T., Timmermann B., Duprez D. and Stricker S. (2018). A dual transcript-discovery approach to improve the delimitation of gene features from RNA-seq data in the chicken model. Biology Open 7(1): bio028498. doi: 10.1242/bio.028498 PMID: 29183907. http://bio.biologists.org/content/7/1/bio028498 https://www.ncbi.nlm.nih.gov/pubmed/?term=29183907

Ducking is a software who is providing simulation of probable docking between two proteins using rigid body monte carlo method. It is written in python and uses the libraries wxPython, VTK, SciPy and BioPython.

SCons is a make replacement providing a range of enhanced features such as automated dependency generation and built in compilation cache support. SCons rule sets are Python scripts so as well as the features it provides itself SCons allows you to use the full power of Python to control compilation. This is a SCons extension (tool) which enables usage of the dvipdfm program to convert dvi files to pdf.

A Python library bringing together utilities I've written over the years for work in bioinformatics and biostatistics, which should be generally applicable outside these fields as well. Focuses on string processing, DBI, and math.

Simulador de trânsito. Objetivos: - Criar um modelo de trânsito, abrangendo espaço urbano, automóveis e motoristas; - Permitir pesquisa a respeito de otimização do trânsito. Escrito em Delphi (ou não).

Maldonado E, Khan I, Philip S, Vasconcelos V, Antunes A (2013) EASER: Ensembl Easy Sequence Retriever. Evolutionary Bioinformatics, 9:487-490. doi: https://doi.org/10.4137/EBO.S11335.

ECMWF parser is a software made in python (it has a version standalone and another python dependant) to work on the data provided by ECMWF. It uses WGRIB to convert binary data to ascii and operates over the last with several functions available.

ED Software project contains several programs used (mostly) for processing gas-phase electron diffraction (GED) experimental data.

The EdfExplorer Software is a plugin based architecture to transport and convert EDF files (ESRF Data File) to HDF5 (Hierarchical Data Format). It allows the exchange of an entire data acquisition folder to be manipulated by common internet free tool

The EMCD Utility Program is designed to process EELS spectra (filtering, shift/stretch on a common energy scale) in order to generate qualitative EMCD signal by substracting the spectra. See also:

This project contains tools, that were created during the work with the Katana robotic manipulator at the workgroup EOS of the University of Magdeburg.

The EP avr-gcc library is a funktion library in C for the Atmel AVR Microcontroller. It has functions for LCD, USART and more.

EUtils is a python client-side library for querying the NCBI's Entrez life science databases through the NCBI eUtils web services.

Earth Enterprise is the open source version of Google Earth Enterprise (GEE), a powerful geospatial application suite that enables organizations to build and host custom 3D globes and 2D maps using their own imagery and data. Unlike Google Maps or Google Earth, Earth Enterprise does not include Google’s proprietary imagery but instead provides the tools needed to manage and visualize private geospatial datasets. The system is composed of three main components: Fusion, which processes and integrates imagery, vector, and terrain data into unified map layers; Server, which hosts the resulting globes or maps via Apache or Tornado-based web servers; and Client, which includes the Google Earth Enterprise Client (EC) for 3D visualization and the Google Maps JavaScript API V3 for 2D viewing. Designed for enterprise, research, and government use, it allows for secure, scalable deployment of geospatial visualization systems within private infrastructure.

Converts RAW Thermo Files into MGF files (Python 3 version). For more information, you can have a look at the README.md file in the source code tree: https://sourceforge.net/p/lp-csic-uab/easiermgf3/code/ci/default/tree/README.md - Gallardo, Ó., Ovelleiro, D., Gay, M., Carrascal, M., & Abian, J. (2014). A collection of open source applications for mass spectrometry data mining. PROTEOMICS, 14(20), 2275–2279. https://doi.org/10.1002/pmic.201400124

Easy Equations is a utility using which one can write the mathematical equations. The focus of this utility is to provide user friendly access to write mathematical equations which is helpful for students, lecturers, mathematicians and Research persons who prefer using mathematical equations in a document, PowerPoint or web sites. Works on Windows as well as Linux platforms. Software Requirements: JDK 7 or higher. Linux Platform with kernel version 2.7 or higher.(for Linux users).python necessary only in linux environment to use COPY functionality.python is pre installed in recent linux distributions.