SaturationHeatMapper: A perl script designed to generate heat maps from matrices of lambda values generate by Saturation v1.0
SatuRationHeatMapper
1.0
Copyright © 2019 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
2 November 2019
SatuRationHeatMapper produces a heat map from a distance matrix with values of lambda obtained using SatuRation (https://github.com/lsjermiin/SatuRation.v1.0).
Lambda is a measure of the degree of saturation across the sites in a pair of sequences. The higher a lambda value is, the darker the corresponding pixel in the heat map is.
Emphasis is on lambda values between 0.64 and 1.0, allowing the sequence pairs that effectively are random with respect 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.
Copy SatuRationHeatMapper.pl to /usr/local/bin/ for easy use. Use this command:
sudo cp SatuRationHeatMapper.pl /usr/local/bin/.
SatuRationHeatMapper -i <infile.csv> <-t|f>
-t = triangular heat map; -f = square heat map
Software complete
Contact author for updates, etc
Jermiin LS, Misof B. Assessing the tree-likeness of phylogenetic data. In prep.