Protein vs rna motif plot (refactored)

[DimmestP]

This will not be going to be one of my proudest moments in data analysis. There were quite a few mistakes across this script and so I went back to the fundamentals. Removed duplicated code (i.e. the code chunk re-analysing the qPCR data despite it already being analysed properly using tidyqpcr in the first script) and refactored the analysis so things made more sense. Unsurprisingly, as the code began to make sense so did the result. All the construct show decent correlations between protein and mRNA levels, even the PIR1 construct which had no correlation previously. Summary of changes:

• Read in delta delta cq from tidyqpcr analysis script
• Moved plotting functions and variables to shared script file
• Consequently, mRNA and protein abundance are now both centred at 1 for WT/mod0
• All scales are log2
• Figure caption includes the normalisation procedure, averaging, number of replicates
• Change grey to a couple of shades darker to distinguish from purple

[ewallace]

Fixing whatever happened, refactoring the code, and producing those lovely plots, should be a proud moment!

I added some text to explain what we did.

Go ahead, merge and close.