A perl script designed to generate heat maps from matrices of lambda values generate by Saturation v1.0
RedundancyHeatMapper
1.1
Copyright © 2013-2022 Bernhard Misof. All rights reserved.
The copyright holder takes no legal responsibility for the correctness of results obtained using this program.
Bernhard Misof
Center for Molecular Biodiversity Research Zoological Research Museum A. Koenig Bonn, Germany
17 May 2013
16 June 2022
RedundancyHeatMapper produces a heat map from a distance matrix with values of lambda obtained by SatuRation (https://github.com/lsjermiin/SatuRation.v1.0).
Lambda is a measure of the strength of the historical signal between a pair of sequences. If lambda = 0, there is no evidence of loss of historical signal; if lambda = 1, the historical signal has decayed completely.
The higher lambda is, the darker the corresponding pixel in the heat map is.
Emphasis is on lambda values between 0.0 and 0.37, allowing pairs of sequences that are most similar to one another to be identified.
Lambda values must be saved in a text file with comma-separated values (.csv).
The first line must contain the number of samples being compared.
Each of the following lines must start with a sample name, and then followed by the lambda values, one for each comparison involving the named sample.
See file labelled 0_Recombination_lambda.csv.
To install RedundancyHeatMapper.pl, type (in the command line):
sudo cp RedundancyHeatMapper.pl /usr/local/bin/.
RedundancyHeatMapper -i <infile.csv> <-t|f>
-t = triangular heat map; -f = square heat map
Software complete
Contact author for updates, etc
Jermiin LS, Misof B. Quantifying the historical signal in phylogenetic data. Syst. Biol. (In prep.)