Bad lineage by Nextclade

usegalaxy.eu support
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1

Hello,

I have a SARS-CoV-2 sequence analysis pipeline, one branch of which ends with pangolin and nextclade tests. When I take the same grouped fasta file and put it on the nextclade website and the nextclade galaxy tool, I don’t get the same results. It seems that the galaxy tool is not up to date. I have modified the various parameters of the Galaxy tool and I do not get the same results as I do via the website. So, my post is more of a warning for people who have doubts about the quality of the lineage announced by the Nextclade tool. Has anyone else made this observation ?

2

yes, the nextclade version on Galaxy is currently very outdated (as it says on the tool interface we are still at v2.7.0). Pangolin is up to date though and, if you know how to do this, help on updating nextclade is welcome.

3

No, sorry, I don’t know how to update it. I just put my fasta file on the website.