Automated alignment cleaning

[Former user]

Currently the only way to remove problematic sequences is using branch length and by manual inspection. We might consider automated methods such as this https://bmcevolbiol.biomedcentral.com/articles/10.1186/s12862-019-1350-2#Sec10 or others.

[Ya Yang]

The above comment was added by Ya Yang

[Ya Yang]

Spruceup: fast and flexible identification, visualization, and removal of outliers from large multiple sequence alignments https://joss.theoj.org/papers/10.21105/joss.01635