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Migrate

Migrate estimates population parameters, effective population sizes and migration rates of populations, using genetic data. It uses a coalescent theory approach taking into account history of mutations and uncertainty of the genealogy.

Migrate is available as a module on Apocrita.

Usage

To run the latest installed version of Migrate, simply load the migrate module:

$ module load migrate
$ migrate-n-mpi -h

Usage:   migrate-n-mpi <input file>

For full usage documentation, run migrate-n-mpi -h.

Example job

Parallel Job

Here is an example job using 64 cores:

#!/bin/sh
#$ -cwd
#$ -j y
#$ -pe parallel 64
#$ -l infiniband=nxv
#$ -l h_rt=1:0:0

module load migrate

mpirun -np ${NSLOTS} migrate-n-mpi parmfile.testbayes

References