Brian Ondov

Assuming you have the subject set in a multi-fasta: `mash sketch -i subjects.fna` `mash sketch query.fna` `mash dist subjects.fna.msh query.fna.msh | sort -gk3 > out` Other sketching parameters may be...

Mash isn't officially encapsulated as a library so that won't be completely straightforward, but it can be done with some copying and pasting. A good place to start would be...

Unfortunately `screen` does not keep track of this. There could be a command line option to make hash counts specific to each contig. The tradeoff would be that a contaminant...

As long as the identifiers in the Genbank VERSION lines appear in the fasta tags of their corresponding contigs, it should be handled fine I believe.

It searches, so it can be anywhere in the tag. And without the "VERSION" itself, just what follows it (normally an accession).

This will be fixed in the next version of Krona. For now, they can be safely ignored.