# Apply a non-stationary nucleotide model to an alignment with a tree

We analyse an alignment with sequences from 6 primates.

## Specify the tree via a tree instance

## Specify the tree via a path.

## Apply the model to an alignment

In the above, no value is shown for `unique_Q`. This can happen because of numerical precision issues.

Note

in the display of the `lf` below, the “length” parameter is not the ENS. It is, instead, just a scalar.