Tree File
- Newick format (.nwk, .newick, .tree)
- Must contain leaf names that match metadata IDs
- Can be rooted or unrooted
Metadata File
- TSV or CSV format
- Must have an ID column (id, ids, identifier, name, etc.)
- IDs must match tree leaf names exactly
- Can contain any additional annotation columns
Alignment File
- FASTA format (.fasta, .fa, .faa)
- Sequence IDs should match tree leaf names
- All sequences must have same length
- Optional - for downloading only
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