timtimbruno

Ugg, if you have hundreds of files to fix the following script might be useful. It replaces the missing classification of root, Bacteria, and Eukaryota of all kreports in the...

Has there been any update to this by chance? I'm using Bracken 2.9 and generated reports with kraken2 2.0.8-beta (I believe) using the following commands. They're part of a loop...

I did not see Eukaryota is missing a value in the forth column as well. Bracken seems to run normally when I use D there.

Ugg, if you have hundreds of files to fix the following script might be useful. It replaces the missing classification of root, Bacteria, and Eukaryota of all kreports in the...

I'm getting similar errors on a fairly recent conda install of funannotate. When using the following command... $conda list -e |grep 'augustus' while in my funannotate environment I get augustus=3.5.0=pl5321heb9362c_5...

I tried lots of things trying to get conda based funannotate to work. The docker image seems to have worked right out of the gate for me and install took...