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Support visualizing amino acid sequences #13

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fedarko opened this issue Oct 3, 2023 · 0 comments
Open

Support visualizing amino acid sequences #13

fedarko opened this issue Oct 3, 2023 · 0 comments
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enhancement New feature or request

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@fedarko
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fedarko commented Oct 3, 2023

Some overlap with #12, maybe.

There are lots of examples of creating dot plots of amino acid sequences (and I think the original Gibbs/McIntyre 1970 paper also created these dot plots?). It would be nice to support this here.

The obvious change is that it isn't immediately clear what the "complement" of an amino acid / stop codon is -- so, in these cases, I think it makes sense to just only include "forward" matches in the dot plot matrix.

A nice side effect of this is that, if we don't care about complementing, then there's no need for us to impose restrictions on the input characters -- so it may make sense to market this as a "mode" which could also be used for comparing arbitrary strings. (Of course, we should still probably check for weird characters that can mess with strings, I guess...?)

@fedarko fedarko added the enhancement New feature or request label Oct 3, 2023
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