1.
Dot Plots
There are many programs freely available to make dot plots. One which is particularly fast and interactive is the dotter program. Some other interesting dot ...
2.
Codon Usage
Base composition is one factor that influences codon usage. Organisms, especially bacteria, have a wide range of GC content and this obviously reflects the ...
3.
Dot Plots
Dot plots are a group of methods that visually compare two sequences and look for ... This is a dot plot of the globin intergenic region in chimpanzees ...
4.
Alignments
Table: Smith-Waterman example. Again, for each element in the matrix you perform the following operation. displaymath2483 ...
5.
Brian's Home Page
... is interested in the area of molecular evolution, bioinformatics, and sequence analysis. ... For one page summaries of a few recent publications see ...
6.
Dot Plots
Dot plots are a group of methods that visually compare two sequences and look for ... This is a dot plot of the globin intergenic region in chimpanzees ...
7.
Brian's Home Page
This is the homepage for Brian Golding . My laboratory at McMaster University is interested in the area of molecular evolution, bioinformatics, and sequence ...
8.
Parsimony Methods
The most parsimonious tree is the one with the minimum number of evolutionary changes. ... First note that the most parsimonious tree may not be unique. ...
9.
Amino acid distance measures
But this assumes (as does the nucleotide Jukes-Cantor correction) that for all characters the rate of substitution from one amino acid and to some other ...
10.
BLOSUM Matrices
The BLOSUM matrices originate with a paper by Henikoff and Henikoff (1992; PNAS 89:10915-10919). Their idea was to get a better measure of differences ...
