Open Source Python Scientific/Engineering Software - Page 56

The project wants to give support to the different tasks and jobs that are made in the common electrical industry. There are many commercial applications that already do the work. We can development by ourselves and make accesible for every one who need

For user guide of the tool, please visit https://github.com/ozgurcanarican/PredDRBP-MLP

A package for preference handling and aggregation rules. A number of voting rules discussed in social choice literature have been implemented in order to study various properties of these rules in simulations with randomly generated preferences.

Pretty Damn Quick (PDQ) analytically solves queueing network models of computer and manufacturing systems, data networks, etc., written in conventional programming languages. Generic or customized reports of predicted performance measures are output.

A simple tool to design DNA primers for mutagenesis in BGME lab (JHU). Allows users to select or enter background sequence and add current and new mutations. During the design process, users are presented with various updating checks to guide them.

NOTE: We have moved the project to https://bitbucket.org/makokal/openprm/overview, all the code that is still in sf is not maintained anymore. please use the new code at the location given

C and Python code for basic probability and statistics contains classes for Combination, Permutation, and Cartesian Product.

ProcessViewBrowser & ProcessViewServer represent an OpenSource attempt to industrial process visualization. It is based on Qt and is very portable. (Now also available as commercial software)

This is the worlds first and probably only FLOSS project aimed to create a lowbudget, based on availble technology, cruise missile. No this is not a Joke, its for real. Why? Since no one has tried to do this before and certainly not under the GPL.

Project VDW serves as a repository for all things pertaining to Van Der Waerden sequences. Volunteers to run the distributed client, mathematicians to help with theory, and anyone interested in VDW sequences are welcome!

Project Galileo at Sourceforge.net aims to provide developers a unique opportunity to develop open source software for an on-line telescope for schools across the UK. See http://www.projectgalileo.org.uk for more details.

ProjectQ is an open-source effort for quantum computing. It features a compilation framework capable of targeting various types of hardware, a high-performance quantum computer simulator with emulation capabilities, and various compiler plug-ins.

Course Project

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/

Protein ALignment Optimiser (PALO) is a script for the selection and alignment of the best combination of transcripts among orthologous genes. PALO is mainly written in Python, although other programming languages are also implemented (R, Perl...).

Software to identify cavities and crevices in proteins. The goal is to be able to take a protein structure, and to differentiate between five different types of environments for each residue: buried, surface, interfacial, cavity, or crevice.

The Protein Geometry Database hosts the development code for a flexible database for searching protein geometry, as well as a library for accessing this data for protein modeling & refinement programs.

The C Protein Folding Library is a minimalistic, high-performance modular library of C functions and data structures for computing folding simulations of proteins on a wide variety of computer hardware.

PepT-IDE is a protein analysis tool that is used for multiple sequence alignment, 3D visualization and displaying protein contact maps for protein sequences and structures. It also has feedback communication between the different views of the protein.

This project implements an algorithm for segmenting protein sequences into smaller meaningful blocks. The method is based on the pure statistical approach and it uses an analogy between proteins and natural language.

Sign up to our mailing list at http://www.protospacer.com/contact.html. Protospacer allows researchers to build, analyze, and share their own database of CRISPR target-sites. This enables the development of custom libraries and helps to transfer the CRISPR technology to new organisms. Each Protospacer database is a simple catalogue of all possible Cas9 target-sites within a given FASTA sequence, i.e. all NGG/NAG sites. Protospacer then allows the user to sub-select targets from the database by gene ID, by exon/intron/UTR location, by sequence similarity, or by genomic co-ordinate. From here, users are able to evaluate potential off targeting, to export results in FASTA format or tabulated (e.g. for Microsoft Excel), and to connect to the Integrative Genomics Viewer (IGVref) and view target-sites in the context of genomic annotations, amino acid translations, and HT-Seq data (for off-target validation). We provide online video tutorials and a toy database from our main website.

The EU Provenance project developed an architecture to document a data generating process in a distributed environment. The Python Client Side Library (CSL) enables the development of provenance-aware Python applications.

Network grep, on steroids

Command-line, PubChem PUG client, written in Python; developed for Linux