Open Source Python Scientific/Engineering Software - Page 85

a cross-platform framework and environment for haplotype analysis with a special focus on human and medical genetics in python/wxpython

Alpha test of an XML based HDF reader

hemcuveGUI is a graphical interface for HEMCUVE++ (see http://tsc.unex.es/~llandesa/page17/page17.html). More specifically, hemcuveGUI lets you · to collect all the data required by HEMCUVE++, · to manage a materials database, · to call the external executable HEMCUVE++ and · to visualize its results.

Development of quality C++ and Python objects for high energy physics computations.

We have moved to GitHub: https://github.com/crs4/hl7apy Since version 1.3.3, we no longer distribute hl7apy with SourceForge. Install it using pip (recommended) or download it from GitHub (https://github.com/crs4/hl7apy/releases)

Collection of utilities to link together various simulation codes relevant to the analysis and optimisation of Human Powered Vehicles (HPVs)

This software detects homologous recombination events (HREs) from SNP data. Based on SNP alleles calls and locations, it breaks the genomes into locally colinear blocks, and looks for cases where SNPs do not agree with the vertical pattern of inheritance in a phylogeny. It applies a dynamic programming algorithm to model whether changes within a block are likely a result of mutations, sequencing errors, or HRE. We use information from the nearby SNPs, so that if 1-2 alleles in a series of SNPs differs from the ancestral allele, it may be better explained as a mutation or sequencing error. But if a series of SNP alleles differ from the ancestral pattern, then it may be more likely that an HRE has occurred, particularly if the allele pattern matches that from another part of the tree better than that of the ancestral node.

This project collect several data mining methods, such as: 1) clustering methods; 2) biclustering methods; 3) FCA methods and etc.

A program to generate the Computer Numeric Code used by the huskystar C20 Sewing Machine

Healthcare Xchange Protocol for interoperative communications. Data exchange/transfer, platform independent,XML-RPC, HL7, SOAP, EDIFACT, simple,easy, authenticated, secure, transparent, no geo-restrictions, open sourced, peer reviewed, collab development

iDocs is a intellectual document work flow with text mining options project.

iHome is a fully tested Smart Home Automation system using the Raspberry Pi Zero WiFi SBC and Linux OS and has all the functional features of NEST or ECOBEE smart thermostats with the added benefit of full privacy and security at less than half the price! It incorporates MBLogic with algorithms and Modbus coms for HVAC home control via the ionware modbus compatible ionC1 input/output controller board. The iHome software system comes fully configured as a SD Card image file for Raspberry Pi Zero wifi Plug and Play capability complete with MBLogic, Node-RED and MQTT already fully installed and ready to go. See wiki instructions to burn the SD Card image file, insert into your RPi Zero and Plug and Play. The iHome is an Internet of Things (IOT) demo project for the ionware ionC1 hardware and the software system and is a complete SCADA platform c/w Modbus TCP Servers and Modbus RS485 serial clients for scalable building automation projects. See - ionware.io/free-offer/

IMOOSE is intended as a general purpose application framework for the development of Finite Element solvers and related tools. It mainly focuses on electromagnetic problem arising from the design of electrical machines.

Processing of smallRNA-Seq data to gather biologically relevant information requires application of multiple statistical and bioinformatics tools from different sources, each focusing on a specific step of the analysis pipeline. The analytical workflow can be challenging for the continuous interventions by the operator, a critical factor when large numbers of datasets need to be analyzed at once. To allow a flexible and comprehensive analysis of smallRNA-Seq data we designed a novel modular pipeline, called iMir, integrating multiple open source modules and resource in an automated workflow, devising different statistical approaches to analyze data rigorously. iMir comprises also a Graphical User Interface (GUI), so that the pipeline is particularly suited for biologist and early stage bioinformaticians and produces both graphics and text outputs.

iTag has been designed for researchers that rely on photographic census techniques of animals that are hard to detect via image recognition algorithms and was originally developed for counting Grey Seals in the German wadden sea during March 2013. It has since then been further expanded and has now reached beta status. iTag allows Users to define up to 9 different categories and name them accordingly. In addition, 4 modifiers are available to further increase the options during a tagging session. Users are able to load a series of Images into a session and add tags on objects on these images within previously defined categories and modifiers. Upon ending the session, result files are produced including (if provided by the EXIF data) the gps information for each Picture, the number of objects in each category and a detailed result file that describes each individual object. In addition, all images that were tagged are saved.

icetools provides a development environment for numerical ice flow models/simulations. Nonlinear rheology and Stokes approach are implemented. "Ready to use" programs/scripts are available based on different numerical libraries, from educational to HPC

This is the public icram.de code repository filled with code/code-snippets and other useful stuff.

The python scripts are designed to work with data measured at id03 at the ESRF.

The BESSY II synchrotron is operated at the Helmholtz-Zentrum Berlin. Undulators are moveable magnetic structures that force the electron beam on a curved trajectory creating synchrotron radiation. This project is the undulator control software.

Tokenizer and translator for the IDL language, principally used with the IDL environment from ITTVis and GDL.

Search engine to help in user understanding of the concepts behind indexing, parsing, clustering, relevance feedback and ranking.

Python program devoted to study the relationship between cells during inmune response. It is based on a 3D periodic boundary conditions grid where cells see each other and react according to certain movement, growth and interaction rules.

Small python script that can visualize Inter Process Communication on Linux. It can create a graph of TCP and Unix sockets, pipes and also process hierarchy. Short (59 sec) demo visualizing ssh client connecting to ssh server on the same Ubuntu host: http://youtu.be/8XFKwzkexQY Longer (2 min 13 sec) demo visualizing ZoneMinder surveillance solution operation (stopping, starting, enabling and viewing camera): http://youtu.be/kM7klE61Ibk Tested on Ubuntu 14.10 and Debian 7. Quick start on Ubuntu/Debian: # apt-get install graphviz python-pygraphviz # ./ipcvis.py

A Python tool which produced lifespan sequences from edits history. The tool is first developed for the Wikipedia edits history but can easily be adapted for others applications. From a database containing for each article its list of revisions, produce one csv file per article containing authored sequences and lifespans. Output format: i,j,lifespan,author with - i : begining of the chars sequence - j : end of the chars sequence - lifespan : number of edits the sequence has survives until the lattest revision - author : author id of the sequence.

A configurable knowledge management framework. It works out of the box, but it's meant mainly as a framework to build complex information retrieval and analysis systems. The 3 major components: Crawler, Analyzer and Indexer can also be used separately.