Pairwise

Geneious is a useful, unique and easy-to-use software system which has been designed to greatly speed up and simplify the research in molecular biology and biochemistry. Geneious is a cross-platform research engine for the retrieval, organization and analysis of biomolecular data that allows... Platforms: Windows

Geneious is a useful, unique and easy-to-use software system which has been designed to greatly speed up and simplify the research in molecular biology and biochemistry. Geneious is a cross-platform research engine for the retrieval, organization and analysis of biomolecular data that allows... Platforms: Windows

MEFIT, also known as the Microarray Experiment Functional Integration Technology is developed as a system for microarray integration. Given any amount of microarray data, it predicts the probability of pairwise functional relationship for any gene pair within individual biological functions.... Platforms: Windows

GROMACS is a versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles. It is primarily designed for biochemical molecules like proteins, lipids and nucleic acids that have a lot of complicated bonded... Platforms: Mac, Linux

Geneious Pro is an integrated, cross-platform bioinformatics software suite for manipulating, finding, sharing, and exploring biological data such as DNA sequences or proteins, phylogenies, 3D structure information, publications, etc. It features sequence alignment and phylogenetic analysis,... Platforms: Windows, Mac, Linux

Contributors:Marc Velasco, Tal KrasovskyReference:P. Berens, CircStat: A Matlab Toolbox for Circular Statistics, Journal of Statistical Software, Volume 31, Issue 10, 2009http://www.jstatsoft.org/v31/i10Please cite this paper when the provided code is used. See licensing terms for... Platforms: Matlab

The function is an improved version of the previous teg_repeated_measures_ANOVA, that should now provide identical results to SPSS.The usage isO = teg_repeated_measures_ANOVA(M, levels, varnames)where M is an N x k matrix of N observations of k nested combinations of factors, as ordered in SPSS.... Platforms: Matlab

One-sample repeated measures is used to analyze the relationship between the independent variable and dependent variable when:(1) the dependent variable is quantitative in nature and is measured on a level that at least approximates interval characteristics, (2) the independent variable is... Platforms: Matlab

A statistical analysis used for count data is to compare the proportions of a binary outcome of interest for two or more groups.This m-file it is an implemented alternative to the Marascuillo's test and identifies significant pairwise contrasts that this last one does not. If the previously... Platforms: Matlab

Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise alignment, a custom graph based segmentation procedure for identifying collinear regions, and the segment-based progressive multiple alignment strategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form of... Platforms: Mac

HaMSTR is a Hidden Markov Model based search tool to screen EST sequence data for the presence of putative orthologs to a pre-defined set of genes. A-priori knowledge about orthology-relationships among genes in different sets of reference species is extracted from the Inparanoid-Database.... Platforms: Mac

SEMPHY is a tool for data-intensive phylogenetic reconstruction. SEMPHY infers phylogenies by Maximum Likelihood, the most established criterion for finding the correct phylogenetic tree. SEMPHY searches for both the most likely topology of the evolutionary tree, and the optimal lengths of its... Platforms: Mac

The Molecular Dynamics Adiabatic Piston model shows two gas samples within a horizontal cylinder that is divided by an insulated piston that moves without friction. It is a supplemental simulation for an article by Eric Gislason "A close examination of the motion of an adiabatic piston" in the... Platforms: Mac

The Confined Lennard-Jones System is an idealized statistical mechanics model that simulates a two-dimensional system of particles confined to a box with a constant temperature thermal reservoir at one end and a movable piston at the other. Particles in this model have unit mass and interact... Platforms: Mac