informativeSites function
informativeSites(Alignment alignment, Boolean ignoreUnknown)
Return the array of site indices (start from 0), at the given alignment, which parsimony informative sites.
Parameters
- Alignment alignment - the original alignment.
- Boolean ignoreUnknown - (optional) If true (as default), ignore the unknown state ‘?’ (incl. gap ‘-‘), when determine parsimony informative sites.