New answers tagged phylogenetics
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Permutations of 4 amino acid sequence oligopeptide
Here's a bash solution using brace expansion and the single-letter codes for the 20 common amino acids:
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Permutations of 4 amino acid sequence oligopeptide
The Python solution is here. IMO Bash definitely isn't a good solution for this calculation.
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Improving list speed: glycosylation example
Huge thanks to @Chris_Rands, this solution increases runtime by ~ 0.5 seconds uniformly across all coded solutions, so this code has a runtime of just over 3 seconds runtime on the benchmark machine. ...
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Accepted
Improving list speed: glycosylation example
I'd start by saying that Python is inherently slow and this feels like a case of perhaps unnecessary optimisation. With that in mind here are my suggested (untested) optimisations of @gaspanic code:
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3
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Accepted
reverse translation from amino acid string to DNA strings
Given the table above the solution for CYCLE is:
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RNA strings and amino acid string
I don't quite get the question but here's the answer and the code
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Accepted
PCA analysis of samples in a phylogenetic tree
There appear two basic issues here:
The PCA would represent arbitrary lineage designation not a genetic quantification.
The PCA will weight the first, second ... fourth position equally, i.e. it is ...
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R ggtree apply colors to branches with multiple colors
See change colors or line types of arbitrarily selected branches in ggtree documentation for details. Here's my R code for applying a color to a specific branch in <...
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