MakeCorrMouse: MakeCorrMouse

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

Compute correlations between tissue dependent intensities of proteins and the tissue dependent number of MHCI peptides

Usage

MakeCorrMouse(
  df_mouse,
  pValue_Threshold = 0.01,
  rsq_Threshold = 0.4,
  useSILAC = F
)

Arguments

df_mouse	Input MHCI tissue draft from GetMouseMHCIdata
pValue_Threshold	Maximum pValue at which a correlation will be considered significant, Default: 0.01
rsq_Threshold	Min RSQ value at which protein is considered significantly correlation, both pValue and RSQ values have to be better or equal than threshold values, Default: 0.4
useSILAC	Logical, use SILAC fold change values instead of normalized raw intensities of protein expression data, Default: F

Details

Mouse protein expression data are retireved from this publication: Geiger et al. Molecular & Cellular Proteomics June 1, 2013, 12 (6) 1709-1722; PMID: 30777892 https://www.mcponline.org/content/12/6/1709

Value

List of dataframes with results

See Also

tally lm reexports ggplot,aes,geom_path,scale_colour_brewer,geom_abline,theme,margin,labs,facet_grid,lims

Examples

## Not run: 
corrs_m<-MakeCorrMouse(df_mouse)

## End(Not run)

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