This function automatically generates exploratory data analysis (EDA) plots from the provided data. These include density plots, boxplots, PCA plots, MDS plots, variance explained plots, violin plots, mean correlation with time, first lag autocorrelation, lag1 differences, and coefficient of variation. The function returns all EDA plots as a list and, by default, creates an HTML report containing the plots, saving it to the specified report directory.
Usage
explore_data(splineomics, report_dir = here::here(), report = TRUE)Arguments
- splineomics
A SplineOmics object, containing the data, meta, condition, report_info, meta_batch_column, and meta_batch2_column.
- report_dir
A non-empty string specifying the report directory. The output HTML reports will be placed there. Default is the current working dir, determined with the here library: here::here().
- report
A Boolean TRUE or FALSE value, specifying if a report should be generated or not. A report is generated per default, but when only the plots as plot objects inside R are desired, this argument can be set to FALSE.