- In
hidecan_aes()the default point shape for QTL regions is now 24. It was previouslyNAwhich would cause the regions to not appear in the plot when settingshow_as_recttoFALSEfor the QTL tracks.
-
New S3 classes to store QTL regions:
QTL_dataandQTL_data_thr. -
hidecan_plot()now has argumentsqtl_list(to pass a list of QTL mapping results) andscore_thr_qtl(to set the significance threshold on the score of QTL regions). The significant QTL regions are represented as rectangles spanning the length of the region on the tracks.
-
New S3 classes to store custom genomic features:
CUSTOM_dataandCUSTOM_data_thr, which can be represented either as genomic locations (points) or regions (rectangles). -
create_hidecan_plot()now acceptsCUSTOM_data_throbjects as input, which allows users to add custom tracks to their plot. It has an additional argumentcustom_aesto handle the aesthetics for custom tracks. -
Added the
hidecan_aes()function which returns the default aesthetics for the different types of data in the plot.
-
Added the
manhattan_plot()function to generate Manhattan plots from a table of GWAS results. -
Fixed bug where specifying chromosome limits for
hidecan_plot_from_gwaspoly()would mess up the ordering of the chromosomes in the plot.
-
Removed
get_gwaspoly_example_data()function so that the package doesn't depend on GWASpoly (for CRAN submission) -
Saved the example object previously returned by
get_gwaspoly_example_data()in as anrdafile in theextdatafolder