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qips is a software package for analyzing ChIP-seq ("Chromatin ImmunoPrecipitation on sequencing") data. It finds enriched regions of arbitrary lengths and is therefore especially suited for analyzing ChIP-seq of histone marks or polymerase.
This project is for particle accelerator start-to-end simulation. The project contains software infrastructure for setting up model run as service/client mode.
This is a unix distribution I made so that I can develop from anywhere--a virtual desk if you will. Some of my friends and colleagues have found it useful, and an easily accessible place to put the operating system up is on the internet.
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Model Builder is a graphical tool for designing, simulating and analyzing Mathematical models consisting of a system of ordinary differential equations(ODEs).
this project provides a Glue to Access GOFER Functionality through C and Python.
Gofer ("Good For Equational Reasoning") is an implementation of the programming language Haskell intended for educational purposes and supporting a language based
ReliaFree is a Python and PyGTK based suite of tools to assist in Reliability, Availability, Maintainability, and Safety (RAMS) analyses. ReliaFree is intended to be an Open Source alternative to proprietary RAMS analyses solutions.
This toolkit allows complete control of a microscopy setup from Labview, Matlab, Scilab, Python, .Net, VB, IgorPro, Mathematica and more. Included is a standalone program for image acquisition and scripting control of a scientific microscope.
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A simple command line regex search [and replace] written in Python. Searches individual files or whole directories, with the option to search recursively into subdirectories.
The OpenFire processor is a Xilinx MicroBlaze-compatible processor being modified for use in Cyber Physical Systems research. This material is based upon work supported by the National Science Foundation under Grant No. CPS-0932113.
CellPublisher is a free, open source program to improve the navigation of biological pathways. It converts CellDesigner diagrams into fully-featured maps that live inside a browser. The navigation is based on the Google maps API.
SynBioLib -- your toolkit for synthetic biology applications. SynBioLib aims to establish a platform on which the Synthetic Biology community can develop and share code that is common to many tasks and programs.
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.
ngram is a module to compute the similarity between two strings. It is different to python's "difflib.SequenceMatcher" in that it cares more about the size of both strings. ngram is an port and extension of the perl module called "String::Trigram
RefineHMM refines an original hidden Markov model (HMM) to find an optimal fit
against the evolutionary group that the HMM models, and it does this using
through iterative database searches and incremental subsequent adaptation of
the seed set.
PyCV is a Python package of modules useful for computer vision tasks. Its current focus is on boosting techniques, Haar-like features, and face detection. PyCV provides the world's fastest method for training a face detector, in a few hours.
This project contains tools, that were created during the work with the Katana robotic manipulator at the workgroup EOS of the University of Magdeburg.
jltk is a library for quickly creating GUIs, specifically for scientific applications, using Python. It is based on wxPython, and integrates plotting using matplotlib.