Shiny Web app for automatic codon optimization based on codon usage in Strongyloides species, Pristionchus species, Brugia malayi, as well as user-provided custom codon lookup tables
For analysis mode, a recent merge added the assumption that an input with two columns and more than one row is a list of geneID/cDNA pairs. Add an example file that can be downloaded for users.
There are discrepancies between the number of isoforms for some C. elegans genes in Wormbase versus ParaSite (e.g. unc-22). Since Wormbase is under stricter control for C. elegans, switch biomaRT call searching for 'Ce-' genes to Wormbase.
Also, change progress message to "searching for genes"
If someone accidentally loads a file using the loadlut or loadintron file uploaders, then hits clear, the values associated with loadlut and loadintron appear to still be in memory (they shouldn't be b/c there is reset code in place).
In some cases, the intron insertion sites might be close enough that they'll be inserted right next to each other. Make sure they aren't overlapping in a weird way.