filtering reads tutorial issue about blobtools HOT 2 CLOSED

Hi,

I'm also having the same issue, are there any news on the topic?

from blobtools.

Hi,

I added some additional information regarding read filtering.

First question, would you work on each library independently or together? I don't know if there's any conceptual difference.

I would assemble them together.

Then, I'd like to know if you could provide some commands to get a list of contigs ranked as superkingdom instead of phylum as is printed in blobDB.table.txt. Also, why the "kingdom" rank is not available? That would be really useful.

You can control the output of blobtools view by specifying -r TAXRANK. Or you can retrieve all taxonomic ranks by saying -r all. I am sorry but 'kingdom' is currently not supported.

from blobtools.