Open Source Python Scientific/Engineering Software for Linux - Page 4

Net.py is a tool for learning about neural nets. Currently, it only allows the user to experiment with a Hopfield net. I am now extending it to cover the Kohonen net. I'd be pleased to receive suggestions and criticism.

This project implements in C++ a bunch of known Neural Networks. So far the project implements: LVQ in several variants, SOM in several variants, Hopfield network and Perceptron. Other neural network types are planned, but not implemented yet. The project can run in two modes: command line tool and Python 7.2 extension. Currently, Python version appears more functional, as it allows easy interaction with algorithms developed by other people.

Simulator of virtual animals made up of biological neural networks for research in the Computational Neuroscience field.

OmicSelector is an environment, Docker-based web application, and R package for biomarker signature selection (feature selection) from high-throughput experiments and others. It was initially developed for miRNA-seq (small RNA, smRNA-seq; hence the name was miRNAselector), RNA-seq and qPCR, but can be applied for every problem where numeric features should be selected to counteract overfitting of the models. Using our tool, you can choose features, like miRNAs, with the most significant diagnostic potential (based on the results of miRNA-seq, for validation in qPCR experiments).

Open Metaheuristic (oMetah) is a library aimed at the conception and the rigourous testing of metaheuristics (i.e. genetic algorithms, simulated annealing, ...). The code design is separated in components : algorithms, problems and a test report generator

Concurrent vision processing system; Toolkit for easy implementation of software concurrent vision processing sub-system. Aimed at robotic applications w/best effort realtime. System includes: capture,processing and displaying.

Physical Symbolic Optimization (Φ-SO) - A symbolic optimization package built for physics. Symbolic regression module uses deep reinforcement learning to infer analytical physical laws that fit data points, searching in the space of functional forms.

ProtPOS is a self-contained, lightweight, and easy-to-use software package for predicting the preferred orientation of protein on a given surface upon initial adsorption. It searches quickly for the low energy protein poses in all translational and rotational degrees of freedom of the protein with respect to the surface using particle swarm optimization. Each successful run returns the lowest energy orientation of the protein on the surface in PDB format, which is readily used for MD simulations. ProtPOS is implemented in Python, making use of the PyMOL library for generating protein conformations and calling GROMACS externally to calculate protein-surface interaction energies. https://cbbio.online/software/protpos/

PyBact is an open source software written in Python for Bacterial Identification. The software generates simulated data matrix which accurately represents the probabilistic positive/negative results of the tested biochemical test.

Python module to interface the CLIPS expert system shell library.

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.

A Python function library to extract EEG feature from EEG time series in standard Python and numpy data structure. Features include classical spectral analysis, entropies, fractal dimensions, DFA, inter-channel synchrony and order, etc.

An easy-to-use python interface to GENESIS3.

PyLife is an implementation of the game of life algorithm featuring parallel programming. It uses MPI and python to achieve a consistent software architecture and reliably performance.

PyPlayground is an environment for developing algorithms involving movement in a space of up to three dimensions using Python.

2D robotic simulator in Python 2.x, tested in 2.6 and 2.7, under Win7(64) and Ubuntu 10.04 (Lucid). Needs the matching version of Pygame installed! (www.pygame.org) Download the .py file and two .bmp files: -->back2_800_600 for background -->any of the robo1.bmp through robo4.bmp for robot image (different colors). The map of the "room" can be changed by modifying the list of obstacles. Read more in ReadMe.txt and in the .py file comments.

PyTom is a toolbox developed for interpreting cryo electron tomography data. All steps from reconstruction, localization, alignment and classification are covered with standard and improved methods. Please sign up to our mailing list to keep up with the most recent updates and versions.

The library consists of various dynamic and temporal geometric deep learning, embedding, and Spatio-temporal regression methods from a variety of published research papers. Moreover, it comes with an easy-to-use dataset loader, train-test splitter and temporal snaphot iterator for dynamic and temporal graphs. The framework naturally provides GPU support. It also comes with a number of benchmark datasets from the epidemiological forecasting, sharing economy, energy production and web traffic management domains. Finally, you can also create your own datasets. The package interfaces well with Pytorch Lightning which allows training on CPUs, single and multiple GPUs out-of-the-box. PyTorch Geometric Temporal makes implementing Dynamic and Temporal Graph Neural Networks quite easy - see the accompanying tutorial. Head over to our documentation to find out more about installation, creation of datasets and a full list of implemented methods and available datasets.

PyVision is a object-oriented Computer Vision Toolkit for researchers that contains vision and machine learning algorithms and algorithm analysis and easily interfaces with scipy/numpy, PIL, opencv and other computer and machine learning libraries.

A Python interface to the Wordnet database of word meanings and lexical relationships. allows the user to type expressions such as N['dog'], hyponyms(N['dog'][0]), and closure(ADJ['red'], SYNONYM) to query the database for lexical relationships.

This project is a complete cross-platform (Windows, Linux) framework for Evolutionary Computation in pure python. See the project site at http://pyevolve.sourceforge.net or the blog at http://pyevolve.sourceforge.net/wordpress

Pylero is an open-source Python-based text generator.

This is a Python package for general Bayesian inference.

The Python Genetic Programming Project implements a Genetic Programming System a la J Koza in Python.