Propinquity output documentation. The top-level docs are here.

The cleaned_ott directory contains the results of pruning OTT version 3.3draft1 so that the root is 93302 and the taxa flagged with the following flags were removed:

Next step: Bump extinct taxa higher in the taxonomy, if necessary so that moving an extinct taxon does not disrupt the phylogenetic naming later in the pipeline. ../bumped_ott/index.html.