Håkon Kaspersen

Thank you for your reply. This clears up a lot of things. However, we also found that the combination known_var = 0 and has_known_variant = . a bit confusing. It...

Dear @mberacochea, @hseabolt, @rcannood, and @csoneson. Thank you so much for taking the time for this review, your feedback is invaluable! I am relatively new to Nextflow, so this will...

Also, should the changes made to the pipeline based on the comments above be registered as issues on the ALPPACA github page?

@csoneson can I update the version of the pipeline based on the changes I have made here without it affecting the review?

Dear @mberacochea, @hseabolt, and @rcannood. I am currently working on implementing some sort of test for the pipeline, but I am having a difficult time in figuring out how to...

@hseabolt thank you for your swift reply! I have looked into the code, but I cannot seem to understand how nextflow download the data from github and puts it into...

@csoneson how do I format bacterial names correctly in the `.bib` file, they are not in italics in the preview pdf. Can I use `\textit` bibtex formatting?

Dear @csoneson @rcannood @mberacochea @hseabolt. Thank you so much for your valuable feedback on ALPPACA! I have now worked on the changes mentioned by you all, and created a new...

Hello! I am having the same issue when trying to build the full kraken2 database after downloading all the libraries. I gave the job 200 hours, 24 CPUs and 800G...

Sorry I was a bit imprecise above. When the header is disabled with `disable = TRUE` a line emerges at the bottom that looks like a footer, and I cannot...