PlotsMouseProtCorr: PlotsMouseProtCorr

In CaronLab/MHCIatlas: Package to reproduce data analysis and further explore the data depicted by Kubiniok et al. 2021 in 'Global Analysis of the Mammalian MHC class I Immunopeptidome at the Organism-Wide Scale'.

Description

Function to visualize correlations of protein intensities and MHCI peptide counts across tissues in mouse

Usage

PlotsMouseProtCorr(
  Mouse_ProtCorrelations,
  pValue_Threshold = 0.01,
  SigGene_names = NULL,
  path_filename = NA,
  return_list_of_plots = TRUE
)

Arguments

Mouse_ProtCorrelations	List which is output object from the function MakeCorrMouse
pValue_Threshold	Max pValue below which correlations are considered signifcant, Default: 0.01
SigGene_names	List of genes of interest, Default: NULL, Default: NULL
path_filename	path and filename where a pdf file containing all plots is to be written to (optional), Default: NA
return_list_of_plots	Logical, can return a list with plots for each gene, Default: TRUE

Details

ggplot2 plots can directly be accessed from the list of plots

Value

list of plots for each gene as ggplot2 object

See Also

ggplot,aes,geom_smooth,labs,scale_colour_brewer,theme,margin stat_poly_eq geom_label_repel

Examples

## Not run: 
plots_m<-PlotsMouseProtCorr(corrs_m,SigGene_names=c('Erap1','Psmb1'),
allSigprots=F,path_filename='~/Erap1andPsmb1.pdf')

## End(Not run)

CaronLab/MHCIatlas documentation built on March 10, 2021, 12:38 a.m.