For the reorg, I would like to keep the 120 minutes time point data in the repository. I want to keep all the history for that folder / data set intact and available for future work.

Merged branch into main.

Notes about repo:

• Muday-144_genotype.R can be deleted as it was a script draft of the temp and genotype analysis
• Possibly move ARE-120min-analysis folder out of this repo for clarity for readers
• Change 72_F3H_PollenTube folder name
• Possibly rename FindControlVsStressDEGenes-[assembly]-[method].Rmd files due to the lab not knowing where the volcano plots are in the repo
• There are two igb_images folders in the repo. One in the main flavonoid-rnaseq area and the other in 72_F3H_PollenTube
• Do we need obsolete folder in 72_F3H_PollenTube

Instead of pushing directly to main branch on team repository, using branch on my fork: https://bitbucket.org/aloraine/flavonoid-rnaseq/src/main/

Link to branch: https://bitbucket.org/aloraine/flavonoid-rnaseq/branch/IGBF-3459

There is redundancy between functions in files Common.R and StyleFunctions.R.
Also, it would be good to split out the statistical library-using functions from Common.R to a different R script, reducing requirement for installing / loading libraries among potential users who just want to interact with the results and not re-run library methods.
Am working on re-org-ing the files. Also, am working on making sure the older .Rmd's can run.

Added "README" to https://bitbucket.org/hotpollen/flavonoid-rnaseq/src/main/72_F3H_PollenTube/results/