Ohana is a suite of software for analyzing population structure and admixture history using unsupervised learning methods. We construct statistical models to infer individual clustering from which we identify outliers for selection analyses.

• Ohana Main Site

• Module Name: ohana (see the modules page for more information)
• singlethreaded

Allocate an interactive session and run the program.
Sample session (user input in bold):

[user@biowulf]$ sinteractive
salloc.exe: Pending job allocation 46116226
salloc.exe: job 46116226 queued and waiting for resources
salloc.exe: job 46116226 has been allocated resources
salloc.exe: Granted job allocation 46116226
salloc.exe: Waiting for resource configuration
salloc.exe: Nodes cn3144 are ready for job

[user@cn3144 ~]$ module load ohana
[user@cn3144 ~]$ convert ped2dgm sample.ped g.dgm
[user@cn3144 ~]$ qpas g.dgm -k 4 -qo q.matrix -fo f.matrix -mi 5
[user@cn3144 ~]$ python $OHANA_HOME/tools/plot_q.py q.matrix q-bar-chart.pdf
[user@cn3144 ~]$ convert cov2nwk f.matrix tree.nwk
[user@cn3144 ~]$ convert nwk2svg tree.nwk tree.svg
[user@cn3144 ~]$ selscan g.dgm f.matrix c.matrix > lle-ratios.txt
[user@cn3144 ~]$ exit
salloc.exe: Relinquishing job allocation 46116226
[user@biowulf ~]$