Jacques Dainat

@SusanaFreitas I have made a recipe for bamaddrg in conda. You can now install it directly using `conda install -c bioconda bamaddrg`

Maybe this [review](https://github.com/NBISweden/GAAS/blob/master/annotation/CheatSheet/gxf.md ) on the different gff/gtf flavors could be of interest. I was planning to update bioperl to get all the gff / gtf conversion properly done. See...

It is actually gff+fasta to embl.

When teaching genome annotation this is a recurring question. Christian Brandt pointed me to this issue recently, and I decided to write a first tool to fix the problem. You...

Thank you @nigyta for the feedback. I would be more keen on to believe in a sequencing error than a pseudogene, especially if the assembly is made from long read...

Thank you for your feedback @hoelzer. I have updated the script to implement your suggestions. There is now the --frags and --pseudo option. By default it just print a report....

yes it is Did I forgot to mention it in the help? Edit: No I menhtion it ;) `--db Input Uniprot fasta file used by prokka. Mandatory. `

Similar error here: ``` 2021-12-28 15:18:36,045 [INFO ] [s.w.s.LibraryService]: Reading archive format pack 2021-12-28 15:18:36,366 [INFO ] [s.w.s.LibraryService]: Converting assets if necessary 2021-12-28 15:18:36,430 [ERROR] [s.w.s.LibraryService]: Failed to convert archive...

Hello ^^, I'm the person that made those comments. I'm expert in genome annotation (I have worked 7 years exclusively in this field). I made an exhaustive review of th...

@KatharinaHoff no worries To continue about the CDS (in case it is really dropped by BRAKER because I find that very strange. Did you check the @Lamm-a file?) The problem...