nextclade
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nextstrain
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
We might want to give users a hint that Nextclade requires a lot of memory in case there are many sequences. We can simply take fasta files size and upon...
Love the use of WASM for nextalign! I was wondering whether you had tried/considered turning exception handling off when compiling your code (`-s DISABLE_EXCEPTION_CATCHING=1 -fno-exceptions`)? Anecdotally, I've found this has...
It may help bug fixing if we generate informative error logs that users can share by clicking a button. Users could optionally submit the sequences in question as well if...
We had issues with adblocker browser extensions and Brave browser breaking Nextclade. Privacy protection features don't treat Nextclade's client-side computation model well. Nextclade performs a lot of calculations in the...
Right now, it's not possible to open the tree view in a new tab without having to do the whole alignment again. Use case: I have two screens and would...
Related: https://github.com/nextstrain/nextclade/issues/439 We might want to warn users when features required for Nextclade to function are unavailable in their browsers. Nextclade needs WebAssembly and WebWorkers, so these are the obvious...
The tree page containing phylogenetic tree rendered by Auspice takes a couple of seconds to navigate to. In Nextstrain, it does not seem to be the case, even if a...
Despite Nextclade being a [single-file download](https://github.com/nextstrain/nextclade/releases), we might also consider packaging it for even simpler installation. The [data](https://github.com/nextstrain/nextclade/tree/master/data) downloads and updates might need to be handled there. We might package...
Despite Nextalign being a [single-file download](https://github.com/nextstrain/nextclade/releases), we might also consider packaging it for even simpler installation. We might package for: - Conda - Homebrew - Various Linux distros with deb...
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Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement