Author Commit Message Labels Comments Date
Sarah Richardson avatarSarah Richardson
Update rscu table names; correct lack of output path in Codon Juggle
Sarah Richardson avatarSarah Richardson
Add equidistant probe for human stop codons
Sarah Richardson avatarSarah Richardson
Added a listing script that will tell you what rscu tables are known and what directory they are in. Also switched warnings about standard codon usage - now a warning is only issued if you're using a non standard codon table.
Sarah Richardson avatarSarah Richardson
remove Eco31I from the specialized enzyme lists
Sarah Richardson avatarSarah Richardson
and the metas
Sarah Richardson avatarSarah Richardson
v 5.52
Sarah Richardson avatarSarah Richardson
to fix fails during testing when GeneDesign has never been installed
Sarah Richardson avatarSarah Richardson
v5.51
Sarah Richardson avatarSarah Richardson
a more accurate README
Sarah Richardson avatarSarah Richardson
removing traces of DNAssemble
Sarah Richardson avatarSarah Richardson
moved to new package
Sarah Richardson avatarSarah Richardson
Version 5.5: No segmentation
Sarah Richardson avatarSarah Richardson
remember to import the proper packages
Sarah Richardson avatarSarah Richardson
Remove segmentation functions from gene design
Sarah Richardson avatarSarah Richardson
non NEB buffers are a headache
Sarah Richardson avatarSarah Richardson
it wasn't vmatches fault
Sarah Richardson avatarSarah Richardson
a brief debugging interlude
Sarah Richardson avatarSarah Richardson
tests for new count function
Sarah Richardson avatarSarah Richardson
Add length attribute to count function. Add sanitize function to strip non nucleotide or non amino acid characters from input. Add special function to cleanly rewrite genbank features that span multiple lines.
Sarah Richardson avatarSarah Richardson
homopolymer subroutines
Sarah Richardson avatarSarah Richardson
better oligo fails
Sarah Richardson avatarSarah Richardson
add interface for dotplotting
Sarah Richardson avatarSarah Richardson
Must never non zero at least one stop
Sarah Richardson avatarSarah Richardson
If an rscu table defines 0 for every instance of an amino acid, no codon will be chosen. Check for this condition.
Sarah Richardson avatarSarah Richardson
an experimental function for searching match hits
Sarah Richardson avatarSarah Richardson
forgot to encourage users to install perl dependencies.
Sarah Richardson avatarSarah Richardson
that was a bad idea.
Sarah Richardson avatarSarah Richardson
i want to try not excluding linearizing enzymes
Sarah Richardson avatarSarah Richardson
add unit function
Sarah Richardson avatarSarah Richardson
proper algorithm argument detection
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