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FAUNUS is an object oriented class library for molecular simulation, written in C++. It contains routines and utility programs for, Metropolis Monte Carlo sampling (NVT, NPT, NmuT ensembles), Macromolecules, Proton Titration, Widom Analysis etc.
Transana is a cross-platform tool for the transcription and qualitative analysis of audio and video data. It also provides the ability to identify and organize analytically interesting portions of videos, as well as attach keywords to those video clips.
The Virtual Commons (http://commons.asu.edu) is an open software initiative devoted to computational experiments on collective action and resource governance and funded by Arizona State University's Center for Behavior, Institutions, and the Environment (http://cbie.asu.edu).
NOTE: we've moved our development to GitHub at https://github.com/virtualcommons - please look for the latest versions there.
AppSignal's MCP server hands Claude, Cursor, or Zed your real errors, traces, and the deploy that shipped them. AI writes the fix; you review the diff.
The Varro toolkit is a system for identifying and frequently recurring unordered subtrees in semi-structured data. It is mostly for linguistics but has applications in semi-structured data mining too.
Software Defined Radio Transceiver project is written in Python while using GNU Radio and USRP. The goal is to create a software HF transceiver with various modes. Go here for more info: http://apps.sourceforge.net/mediawiki/sdr/index.php?title=Main_Page
Deploy in 115+ regions with the modern database for every enterprise.
MongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.
A three-step approach towards experimental brain-computer-interfaces, based on the OCZ nia device for EEG-data acquisition and artificial neural networks for signal-interpretation.
CoCOOT is an extended collaboration system of COOT(Crystallographic Object Oriendted Toolit). It operates an add-on of original Coot. It enables to collaboration through internet.
Todays digital nomads own tons of multimedia data. And they own a set of very different devices to record, store and access that data. INTERMEDIA is a European project that aims at user-centric multi media access.
Our goal is to develop a full working solver for ATA (with 1 clock) in Python, with MTL to ATA support. The decidability for the emptiness problem was proposed by Lasota and Walukiewicz. The MTL to ATA was proposed by Ouaknine and Worrell.
Python program for fitting rate constants to primarily kinetic data as 1st or 2nd order kinetics or autocatalysis. It also allows specific noise cancelling, data smoothing by fourrier transform, box averaging and flowing mean. For Python 2.6 or earlier.
BASILISK is a probabilistic model of the conformational space of amino acid side chains in proteins. Unlike rotamer libraries, BASILISK models the chi angles in continuous space, including the influence of the protein's backbone.
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.
Create geographics maps from data in table format. Serve map creation requests using a XML-RPC server. - Requires: mapnik, swftools, MySQL server and MySQLdb python module.
BARNACLE is a Python library for RNA 3D structure prediction. It can be used for probabilistic sampling of RNA structures that are compatible with a given nucleotide sequence and that are RNA like on a local length scale.
RADAR stands for Rapid Automatic Detection and Alignment of Repeats in protein sequences. RADAR identifies gapped approximate repeats and complex repeat architectures involving many different types of repeats.
Radar has moved to github (https://github.com/AndreasHeger/radar)