Utilies for plotting local trees in genome regions

Documentation utilisateur
06/02/2014

The two scripts attached allow to build and plot local population trees. The principle is

  1. To recompute Reynolds distances between population in a region. This is done using the local_reynolds.py python (2.7) script. Requires numpy python package.
  2. To reestimate branch length of the Whole genome tree from local Reynolds distances. This is done using the local_tree.R script. Requires ape and phangorn R packages.

See the Wiki for more details on using these scripts.

Fichiers

local_reynolds.py Magnifier - Python (2.7) script to compute local reynolds distances (5,673 ko) Bertrand Servin, 10/02/2014 17:51

local_trees.R - R Script to plot local population trees (4,711 ko) Bertrand Servin, 26/09/2019 09:24