Formats
Many commands use a list of gene trees, which are contained in TREE block, as input. There are two formats.
...
Note that this format is only valid for command InferNetwork_ML and CalGTProb.
Abbreviation
using using '-' : trees are named continuously with the same prefix
| Code Block | ||
|---|---|---|
| ||
#NEXUS
BEGIN TREES;
Tree gt1 = ((C,((B,D),A)),E);
Tree gt2 = (B,(D,(C,(A,E))));
......
Tree gt200 = (D,((B,E),(C,A)));
END;
BEGIN PHYLONET;
InferNetwork_MP (gt1-gt200) 1;
END; |
...
- using 'all' : all trees in TREES block will be used
| Code Block | ||
|---|---|---|
| ||
#NEXUS
BEGIN TREES;
Tree gt1 = ((C,((B,D),A)),E);
Tree gt2 = (B,(D,(C,(A,E))));
......
Tree gt200 = (D,((B,E),(C,A)));
END;
BEGIN PHYLONET;
InferNetwork_MP (all) 1;
END; |