The project is organized into the following folders structure:
├── analysis : contains the R scripts │ (analysis.R, checkRep.R, quantify.R) │ and their auxillary functions │ ├── data : default folder for the input tables and │ data to be analyzed │ ├── results : where the outputs of the scripts are stored │ │ ├── figs : figures │ └── tables : tables
The scripts should be run from the
analysis folder, and the paths to
the required folders are defined in the scripts as:
# Define Data and Results repositories dataRepo = '../data/' figRepo = '../results/figs/' tabRepo = '../results/tables/'
The MS and DMS files are expected by default to be in
complex projects, the MS files can be placed in sub-folders of
and their paths are given in the
taskTable input file.