Migrate-N
Migrate-N is used to migrate infer population genetic parameters from genetic data. At present one must create a parmfile using a local copy of Migrate-N, and in the parmfile, specify infile=infile. The parmfile is then uploaded, and th values in it are used to configure the run. In order to run effciently, one must specify the correct number of loci in the dataset.
A manual for Migrate-N is available [pdf]; Migrate-N home page here.
The Tool ID for this interface is MIGRATEN_XSEDE. It is selected with toolId = MIGRATEN_XSED
Supported uploaded files:
input.infile_ - Primary Input File
choose_parmfile_ - The parmfile that configures the run
Supported parameters are:
For all runs.
vparam.runtime_ - Float - Maximum Hours to Run. Max = 168, default=0.25.
vparam.num_loci_= Integer, required, sets the correct number of processes for an efficent run.
INPUT = several data types are permitted. These include: Allele, Microsatellite, Brownian, Sequence, SNP, HapMap, Geneology Summaries
Test input file (microsatellite data): migrate_infile.txt
Test input parmfile (created using a local copy of Migrate-N) parmfile.txt
Test output file1: outfile_bayes.pdf
Test output file2: bayesfile.txt
If you use Migrate-N, please cite
Beerli and Palczewski (2010) Unified Framework to Evaluate Panmixia and Migration Direction Among Multiple Sampling Locations. Genetics (2010) vol. 185 pp. 313--32.
If there is a tool or a feature you need, please let us know.
SDSC - UC San Diego, MC 0505 - 9500 Gilman Drive - La Jolla, CA 92093-0505
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