Open Source Python Scientific/Engineering Software - Page 87

This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function.

metaProt is a python pipeline to analyze and extract data from protein sequences found in metagenomic projects. It integrates several existing tools (HMMer, Pepstats, Blast...) to be used against custom databases. Please, read the README.txt file to find more about this.

Metmask has moved to github http://github.com/hredestig/metmask Metmask is a tool written in python for managing chemical identifiers for metabolomics experiments. It can incorporate identifiers from local textfiles, several online databases, query PubChem and record all found associations in a local sqlite database.

mgE3D - mgEngine3D is an unfinished 3D Engine based on OpenGL. By now it provided several features like scenetree, mesh/skeleton mesh rendering and animation, terrain, materials, textures, multiple viewports, Python exporter for Blender and so on.

miRPV is an Automated tool that allows users to predict and validate microRNA from genome/gene sequence. System Requirement CPU: AMD64 (64bit) Memory: 2Gb RAM Storage: 5Gb Ubuntu 18.04

A project to host code developed for the Microtransat challenge, a race between autonomous sailing robots. This project is intended for both supporting code such as tracking systems and robot control systems or parts of robot control systems.

[This project moved to Github and is no longer maintained here] Minimum intrusion Grid (MiG) is an attempt to design a new platform for Grid computing which is driven by a stand-alone approach to Grid, rather than integration with existing systems. The goal of the MiG project is to provide Grid infrastructure where the requirements on users and resources alike is as small as possible (minimum intrusion). MiG strives for minimum intrusion but will seek to provide a feature rich and dependable Grid solution. In line with the minimum intrusion concept, you only need to download and install the middleware if you want to run your own Grid. Users and resources only need a certificate and a browser to use MiG.

A collection of software made by Milos Rancic.

minITIL is an open source implementation intended to create a solid framework for building applications needed in real life deployments of Information Technology services based on ITIL framework.

This software presents a flexible and configurable proposal for monitoring and management of real and virtual HPC infrastructures, compatible with paradigm of cloud computing. We help you to answer: 1) What is the performance of my resources? 2) What equipment and resources do we have already? 3) What do we need to upgrade or repair? 4) What can we consolidate to reduce complexity or reduce energy use? 5) What resources would be better reused somewhere else? Status: PreAlpha, so any help shall be welcome. Made for LINUX. GNU General Public License version 3.0 (GPLv3)

The minfx project is a Python package for numerical optimisation, being a large collection of standard minimisation algorithms. The name minfx is simply a shortening of the mathematical expression min f(x).

mitoMaker is a pipeline script developed to simplify the assembly and automatic annotation of mitochondrial genomes, based on raw NGS reads and an optional target reference. mitoMaker calls well known assemblers and algorithms, such as SOAPdenovo, MIRA and blast+ and parses their results providing easily readable outputs, such as FASTA, GENBANK, SEQUIN, PNG and others. General pipeline: 1-iterative De Novo assembly, with different k-mer values, trying to assemble a build that matches a target mitochondrial genome given. 2-searches for all mitochondrial gene features and circularization. 3-stores the best result found. 4-uses the best assembly as backbone for a reference based assembly, using MIRA and MITObim, trying to extend the mitogenome and close gaps. 5-annotates the best assembly, identifying the start and end position of each and every feature. 6-creates a folder with all the results (PNG, GENBANK, FASTA, SEQUIN, CAF, MAF and a stats logfile).

Mitomaker is a pipeline wrapper, result analyzer and automated annotator, written in Python v2.7, that, with the help of other programs, builds, analyzes, looks for the best build and annotates target genomes (such as mitochondria and cloroplast). It could be used with other targets, such as specific genes, or transcriptomes, even though that is not it's primary goal, nor thoroughly tested. After various attempts to build different mitochondrial genomes in the lab I studied, a general pipeline started to appear: assemble reads with MIRA or SOAPdenovo-Trans, look for a scaffold/contig that matches a closely-related species, check it to see if all expected genomic features are present (since mitochondria is well conserved), check to see if the assembly might have circularized (since it's a circular DNA). If a feature was missing, or it hasn't circularized, try and assemble again with different assembler parameters (mainly k-mer). Rinse and repeat until the best build is found.

A high-level python to matlab(tm) bridge. Let's matlab look like a normal python library.

A set of libraries, written in C/C++, to perform multimedia operations on Windows systems. These libraries are especially suited for performing psychophysical experiments on human and animal vision.

mltc - Minimum Lens Thickness Calculation. Application is created for minimum lens thickness calculation according to GOST (Russian, Belarusian) Standard

mmView is the web based viewer of macromolecular Crystallographic Information File (mmCIF) format. Online ready-to-use version is available at http://ich.vscht.cz/~cechp/mmcif/ or http://ich.vscht.cz/projects/mmview/

generic makefiles for use in bioinformatics

mod_openopc is a full featured implementation of the OpenOPC library for Python. It is cross platform compatible (full Python 2.5 and up). We used to recommend running it on a POSIX platform (Unix / Linux), but thanks to modest efforts since 2014, performance in Windows OS environments is excellent.

Serial/OSC/MIDI converter for monome devices. Similar to MonomeSerial, but platform independent and with additional features. It also includes an API-like suite of Python objects for interfacing directly with monome devices.

Monte is machine learning in pure Python. Monte's focus is the construction of gradient based learning machines from many small components.

motes-app is a web based data aggregation and monitoring tool for MDA320 and MDA300 sensor boards motes and base station.

mpiP is a lightweight profiling library for MPI applications.

HMI/SCADA software. Support Linux, Windows (cross operation) Source library for writing own control applications with Qt in C++/Python.

This project is a tool for developers on modular robotics. You can create modular robots, movements for each servo of the robot, simulate the robots. Also it has an API for creating your own Python scripts.