STRUCTURAMA is a program for inferring population structure from genetic data assumming that the sampled loci are in linkage equilibrium and that the allele frequencies for each population are drawn from a Dirichlet probability distribution. The number of populations may be fixed, or it can be treated as a random variable following a Dirichlet process prior, in which case the program can estimate the number of populations. Markov chain Monte Carlo (MCMC) is used to approximate the posterior probability that individuals are assigned to specific populations. Structurama implements a number of methods for summarizing the results of a Bayesian MCMC analysis of population structure. Perhaps most interestingly, the program finds the mean partition, a partitioning of individuals among populations that minimizes the squared distance to the sampled partitions. For more information about the program visit STRUCTURAMA Home Page for more information. Please note: the version of the program installed on our clusters is older then version 2 described on the program's page.

You will need to upload an input file containing (besides the actual input data) the structurama control block, enclosed between the statements begin structurama; and end;. If the control block contains the keyword summarize, but not the keyword mcmc (i.e., when the program is asked to analyze data from previous MCMC run rather than to perform a new MCMC simulation), you will also need to upload an MCMC results file from a previous simulation. Description of Structurama control options can be found here. Please note: options described on STRUCTURAMA home page pertain to a newer version of the program and some of them may not work with the version running on our clusters.

Calculations will be carried out on the BioHPC compute cluster at CBSU. You will receive e-mail notifications when the job is submitted, when it starts, and when it is finished. Output will be available via links embedded in the notification e-mails. For more information about this program and BioHPC interface in general, please visit our Frequently Asked Questions page.

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Job name:    (will be set to the name of input file))

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Upload input  file
No format checks of your input file will be carried out. For more information on input file format click here
  

Upload MCMC result file (optional)
The name of this file must be given as parameter sumfile in the Structurama control block in the input file. 
  

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