Ima3

IMa3 on XSEDE

IMa3 allows an investigator to estimate the topology of the phylogenetic tree for the sampled populations or species. IMa3 is based on the older IMa2 and IMa2p programs and uses the same input file format. Nearly all of the options and analyses that were available with IMa2 are present in IMa3, although many of the command line options have changed. If compiled with MPI (MPI_ENABLED is defined during compilation) then IMa3 can be run with multiple heated chains distributed across multiple cores.. Here we offer IQ-TREE on XSEDE resources, which will make the analysis run as fast as possible.

IMa3 Documentation here.

The table below shows the kinds of results returned by CIPRES Science Gateway:

Input File Names Sample File from a Test
input file ima3test3pop4loci_39.u
   
Sample Output File Type File Name
main output ima3_test_39.out
.ti file ima3_test_39.out.ti
.mcf file ima3_test_39.out.mcf.0
.mpt file ima3_test_39.out.mpt
   

 

If you use IMa3 here, please cite:

Hey, J., Chung, Y., Sethuraman, A., Lachance, J., Tishkoff, S., Sousa, V. C., and Wang, Y. (2018) Phylogeny Estimation by Integration over Isolation with Migration Models. Molecular Biology and Evolution 35, 2805-2818.

If there is a tool or a feature you need, please let us know.

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