Torsten Seemann
Torsten Seemann
``` conda upgrade -n base --all --yes conda create -n barrnap barrnap --yes conda activate barrnap barrnap --version ``` Can you try this please?
I no longer support brew, sorry. Please use bioconda.
@kaanb93 @wvnicholson The `--gsize` is only used to help sunbsample the data really. Was your virus grown in culture? Could it have monkey cells in it? Did you assemble a...
I am not sure if i only report the top hit?
This would have made teaching much easier recentrly.
@ppgardne well this is annoying. i will try and update databases and see if it fixes it do you have an accession for a TB genome that fails so i...
Yes, it has been a long time! But there's always a link - now it's Dr @helena-bethany ``` [barrnap] Found: 16S_rRNA AL123456 L=1519/1585 1471860..1473378 + 16S ribosomal RNA [barrnap] Found:...
It does fall a bit short at both ends. `nhmmer` only does local alignment perhaps `cmscan` with a proper .cm is neeeed here. ``` gene 1476899..1477013 /gene="rrf" rRNA 1476899..1477013 /gene="rrf"...
`cmscan` gets it right (1 bp different at either end compared to annotation in NCBI) ``` > 5S_rRNA 5S ribosomal RNA rank E-value score bias mdl mdl from mdl to...