Q&A

What happens after I submit my data sets?

After submission, you will be redirected to a Job submission page where you can find the information about your submitted job as well as a link to the result of the analysis. In addition, you will receive an email with the link to the result of the analysis

What should I do if my data set is too big to be uploaded to the web server? 

If the size of your dataset exceeds the upload limit (8M), you may zip the file and upload the zipped file. Please note that the web server does not have the computational power for analyzing very large data sets. 

The example files are given below

  1. Alignment files in phylip/nexus/fasta format: test.phy, test.fasta, test.nex
  2. Multiple alignment files in phylip format as a zip file: test.zip
  3. A phylogenetic tree in newick format: test.tre
  4. A phylogenetic tree in nexus format: test.nexus.tre
  5. A species tree: test.sptree
  6. Unrooted trees: unrooted.tre
  7. Rooted trees: rooted.tre
  8. Multiple gene trees in a single file: genetrees.gt
  9. Bootstrap gene trees used in the species tree bootstrap analysis: bootstrap_genetrees.zip

Citation  

Liu, L., and L. Yu. Phybase: an R package for species tree analysis. Bioinformatics. 2010 26(7):962-963  

Liu, L., Yu, L., Edwards, S.V. A maximum pseudo-likelihood approach for estimating species trees under the coalescent model. BMC Evol. Biol. 2010, 10:302. 

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