Cornelius Roemer
Cornelius Roemer
When there are mutations in the first or last 0.1% of the genome (e.g. pos 10 in SC2), they are not as visible as they should be because they crash...
I have a sequence that's reported to have 11 mutations in a cluster, but I can't figure out where this cluster is supposed to be. It would be helpful in...
Right now, we calculate mutation counts as raw nucleotide substitutions output by Nextalign. When there are regions of Ns, we therefore systematically underestimate the real divergence of sequences. A better...
It could be more useful to list reversion and labeled mutation counts rather than total nuc substitutions as a column. This would be a good place to add descriptive text...
Ambiguous nucleotides are currently displayed only in the tooltip of the corresponding column:  In gene view, ambiguous bases turn the corresponding AA into an X. It would be nice,...
Investigating EPI_ISL_8927255, I noticed that when there are ambiguous nucleotides in the query sequence at sites that are mutated in the nearest reference tree node, we falsely call this as...
Here's a user who was confused by the fact that running Nextclade with example sequences outputs a warning: ``` [WARN] Nextclade: Warning: in sequence "USA/VA-DCLS-3814/2021": When processing gene "ORF6": Unable...
When investigating whether a particular sequences is a contaminant or recombinant, I need to take that sequence in question and spike in some other clades like Delta, Alpha etc. This...
When scrolling more than a few lines per second, the display is grey for a good part of a second. This seems to be due to lazy loading of the...
When I include an invalid nucleotide in the root sequence, all I get is a fairly non-descriptive error message: ``` [ERROR] Nextclade: Error: Invalid nucleotide: "E" ``` It'd be helpful...