Markov Chains

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.

Conrad is both a high performance Conditional Random Field engine which can be applied to a variety of machine learning problems and a specific set of models for gene prediction using semi-Markov CRFs.

This package implements the phrased-based hidden semi-Markov model described: JesAss Andrés-Ferrer, Alfons Juan. A phrase-based hidden semi-Markov approach to machine translation. Procedings of European Association for Machine Translation (EAMT), 2009. pp. 168-175. This project depends on...


Platforms: Mac, Linux

JAG3D is a tool to estimate geodetic 1d, 2d and 3d-networks by a least-square-adjustment called GauAz-Markov-Model. Moreover, the software supports deformation-analysis. Add-ons are coordinate-transformation (CoordTrans) or the Form-Fitting-Toolbox.


Platforms: Windows, Mac, Linux

Kongreg8 is a church database system allowing you to free yourself from the chains of the office. Written in PHP and MySQL, it has been in production since 2008 and is now released under GNU GPL v3.


Platforms: Windows, Mac, Linux

This project will show how to implement the Hidden Markov Model approximations of Voice Recognition into embedded and low power systems.


Platforms: Windows, Mac, Linux

Molevolve is a Java library for running a Genetic Algorithm to model the 3-dimensional structures of peptide chains from amino-acid sequences. Client code can specify its own peptide chain model, fitness functions and GA operations. Requires JDK 1.5.


Platforms: Windows, Mac, Linux

This Java software implements Profile Hidden Markov Models (PHMMs) for protein classification for the WEKA workbench. Standard PHMMs and newly introduced binary PHMMs are used. In addition the software allows propositionalisation of PHMMs.


Platforms: Windows, Mac, Linux

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.


Platforms: Windows, Mac, Linux

Another block-dropping game, wherein players attempt to form and then destroy large chains of coloured blocks to score points (or humiliate other players).


Platforms: Windows, Mac, BSD, Linux

Here is a small application that may help some developers who manage their files chains "localized" sour the form: "key" = "translated string"; From a CSV file generated from Excel or Numbers, the application will generate text files ready to use for each language present in the table....


Platforms: Mac

Genre: Puzzle & Trivia About Super Glinx Link matching pieces to form chains. Click on the last piece in the chain to remove the chain. You must remove all of the pieces to complete a level. - Play Full Screen (or in a window). - Six variations of timed or non-timed play. - More pieces and more...


Platforms: Mac

This script returns the convex hull (separated into upper and lower chains of vertices) and the diameter (farthest pair of points), given input consisting of a list of 2d points represented as pairs (x,y). The convex hull algorithm is Graham's scan, using a coordinate-based sorted order rather...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

The Metropolis-Hastings Sampler is the most common Markov-Chain-Monte-Carlo (MCMC) algorithm used to sample from arbitrary probability density functions (PDF). Suppose you want to simulate samples from a random variable which can be described by an arbitrary PDF, i.e., any function which...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

This toolbox is a fully object-oriented toolbox with a GUI for Bayesian Wavelet Networks. It is easy to use.The training method is used here is one of powerfull, off-line training algorithm, called Hybrid Markov Chain Monte Carlo- based Bayesian Approach.Also, You can easily add your own function...


Platforms: Matlab

To duplicate results of the screenshot, please run:test_WHMMThis script is an implementation of Reference [1], including 2 parts:1. 1D signal denoising (page 9~11)2. 1D random process(RP) classification (page 12)Reference:[1] Wavelet-Based Statistical Signal Processing Using Hidden Markov...


Platforms: Matlab

The submission considers a case where you deduce what weather it is given the status of a shirt that is hung outside. The weather could be Sunny, cloudy, Rainy and the shirt could be dry, dryish, damp etc. Now given some probability matrices (The initial probability of the weather, the transition...


Platforms: Matlab

This program package helps modeling spin chains, qubit registers, etc. according to nonrelativistic quantum mechanics and some novel ideas from quantum information theory.In particular, it contains MATLAB routines for reordering qubits, for computing the reduced density matrix after removing some...


Platforms: Matlab

Forward Viterbi algorithm based on the Python code found at: http://en.wikipedia.org/wiki/Viterbi_algorithmAlso included is an example based on the one from the Wikipedia page for a simple 2-state model with 4 observations. To paraphrase:Bob tells Alice his daily activities (observations) and...


Platforms: Matlab

This submission consists of simple and straight forward functions that plots robotic arm configurations and computes forward kinematics transformation matrices. The user has to simply specify the DH parameter matrix (the standard defined in craig's Introduction to Robotics book)The file contains...


Platforms: Matlab