Clean up repository. Deleted test files made by contributors at Aphaenofest
Created hierarchy for files in climate-cascade repository.
Added a projects directory that contains a subdirectory for each project within the overall climate-cascade grant.
Within each projects subdirectory are a standard set of subsubdirectories that can be used by the responsible collaborator
Added a README.txt file within each directory so it will be tracked by git.

climate-cascade
|-- protocols      # Directory for protocols shared by research group
|-- scripts        # Directory for general purpose scripts and examples
|-- projects       # Directory that contains subdirectories for each individual project
|  |-- chromosomes # Directory for 'chromosomes' project
|  |  |-- data     # Directory for data specific to this project. BY DEFAULT IGNORED BY git SO WILL NOT BE TRACKED OR PUSHED TO PUBLIC REPOSITORY
|  |  |-- scripts  # Directory for scripts used for data analysis
|  |  |-- results  # Optional (and probably preferred) directory for results from 'scripts'. Preferable to have a subdirectory with results from each date or include date in YYYYMMDD format
|  |  |-- doc      # Directory for documents; methods, manuscripts, etc
|  |-- CT-max-min  # Directory for CTmax/min project

...repeat for all projects...