WIP: minor edits

[bluegenes]

(in progress)

Related notes, will punt to issues upon completion:

Generally, in your sketch_genomes rule examples, you're using --name-from-first. Since you're already showing wildcards, could you use --name {wildcards.accession} instead, since it's a better way to name genome sigs? Or are you concerned about that complicating things?

This would be a handy way to show that you can access the wildcards in the shell directive, too.

Using wildcards to generalize your rules

I would bold or otherwise emphasize this sentence:

The first and most important rule of wildcards is this: snakemake fills in wildcard values based on the filename it is asked to produce.