Ninja is a neighbor-joining method for the construction of large phylogenetic trees.
- To use Ninja, upload your data in FASTA format for alignments or PHYLIP format for pairwise distance matrices.
- Resources: documentation
All files are located in the Community Data directory of the iPlant Discovery Environment at the following path:
Community Data > iplantcollaborative > example_data > ninja
- Use sequences_fasta.mfa as a test input file.
Parameters Used in App
When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.
- Default parameters only, no further configuration needed.
- Expect a tree file in Newick format as output