Multi-Omic Differentially Expressed Gene-Gene Pairs

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Documentation for package ‘multiDEGGs’ version 1.1.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.predict_multiDEGGs	Predict method for multiDEGGs_filter objects
calc_pvalues_network	Calculate the p values for specific category network samples
calc_pvalues_percentile	Compute interaction p values for a single percentile value
cat_parallel	cat_parallel (from nestedcv)
get_diffNetworks	Generate multi-omic differential networks
get_diffNetworks_singleOmic	Generate differential networks for single omic analysis
get_multiOmics_diffNetworks	Get a table of all significant interactions across categories
get_sig_deggs	Get a table of all the significant interactions across categories
multiDEGGs_combined_filter	Combined multiDEGGs filter
multiDEGGs_filter	multiDEGGs_filter
my_palette	Internal function for colors
node_boxplot	Boxplots of single nodes (genes,proteins, etc.)
plot_regressions	Plot differential regressions for a link
predict.multiDEGGs_filter	Wrapper of .predict_multiDEGGs for multiDEGGs_filter()
predict.multiDEGGs_filter_combined	Wrapper of .predict_multiDEGGs for multiDEGGs_filter_combined()
synthetic_metadata	Synthetic clinical data
synthetic_OlinkData	Synthetic RNA-seq count data
synthetic_proteomicData	Synthetic RNA-seq count data
synthetic_rnaseqData	Synthetic RNA-seq count data
tidy_metadata	Tidying up of metadata. Samples belonging to undesidered categories (if specified) will be removed as well as categories with less than five samples, and NAs.
View_diffNetworks	Interactive visualisation of differential networks