Search results
This section focuses first on how we estimate distances, depending upon the level of interest, and then highlights some approaches for visualizing and gaining inferences from the distance matrix itself.
Genetic distance matrices are converted into genetic ‘maps’ by using MDS analysis. Principal Co-ordinate Analysis (PCO) and Principal Component Analysis (PCA) are also aimed at graphically representation of genetic relatedness between a definite number of individuals or populations.
A genetic map shows the map distance, in cM, that separates any two loci, and the position of these loci relative to all other mapped loci. The genetic map distance is roughly proportional to the physical distance, i.e., the amount of DNA between two loci.
Input consists of raw data or distance matrices in appropriate GenAlEx format (see the ‘Data Format in GenAlEx’ section). In order to proceed with an analysis the worksheet containing
The Geographic Distance Matrix Generator is a platform-independent Java application that implements the same powerful suite of spherical functions as the Perpendicular Distance Calculator to compute all pair wise distances from a simple list of geographic coordinates.
DNADIST . Computes four different distances between species from nucleic acid sequences. The distances can then be used in the distance matrix programs. The distances are the Jukes-Cantor formula, one based on Kimura's 2- parameter method, the F84 model used in DNAML, and the LogDet distance.
Arthur Georges | Georges Lab
