Included PLSDA algorithm.
WiP requires adjustment of vignette and tests, should work though.
Adjusted SVD code to more straightforward implementation.
Fixed variable ordering for LM-variance calculations.
Reduced size of data-sets in testing procedures to stop unit-test timeouts.
Added examples to data objects and reporting functions.
Cleaned repository.
GitHub Readme includes Installation instructions and brief workflow tutorial.
Added BiocViews: ReportWriting, Visualization, Normalization and QualityControl.
Inlcuded 'importFrom' for all ggplot2 functionality.
Required packages now live in Imports section.
Switched to 'aes_string' to remove visible binding NOTEs in plot functions.
Included local variables to shut up the remaining NOTEs.
Moved 'match.arg' choices to function heads.
Moved code for generation of mock-up dummy-data from data-raw into the data.R file.
Added testing for dummy data.
Fixed highlighting in vignette.
Fixed gray-area issue in box-plots.
Included NEWS file.
Added Bioconductor installation instructions in vignette.
Added package man-page.
Set lazyData to false.
Added URL and BugReports fields to Description.
Remove bapred and permute packages from suggest because they are no longer required.
Also removed pals package, but included reference because I use the tableau color-scheme.
All packages that are required for execution are now 'Depends' instead of 'Suggests'.
Revised vignette content, formatting and spelling for more convenient user experience.
Fixed test for percentile normalization to actually test PN-function.
Prelim report now checks if clr/tss transformed values are present prior to calculating them.
Report-names/directories can now be changed from default by user.
Reporting functions included in testing.
Formatted code to adhere to 4-space indentation and 80 characters width requirements. For the most part.
Included code for generation of dummy-data.