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added corr plots as function for interactive graphs on shiny

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Tanushree Tunstall 2021-08-20 18:52:47 +01:00
parent c0c30fd527
commit 0c16937b68
2 changed files with 28 additions and 3 deletions
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25
scripts/functions/my_pairs_panel.R
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@ -1,3 +1,28 @@
my_corr_pairs <- function (corr_data){
OutPlot_corr = pairs.panels(corr_data
, method = "spearman" # correlation method
, hist.col = "grey" ##00AFBB
, density = TRUE # show density plots
, ellipses = F # show correlation ellipses
, stars = T
, rug = F
, breaks = "Sturges"
, show.points = T
#, bg = c("#f8766d", "#00bfc4")[unclass(factor(corr_ps$duet_outcome))] # foldx colours are reveresed
#, pch = 21 # for bg
, jitter = T
, alpha = 1
, cex = 1.8
, cex.axis = 2
, cex.labels = 3.5
, cex.cor = 1
, smooth = F)
return(OutPlot_corr)
}
######################################################################
my_pp = function (x, smooth = TRUE, scale = FALSE, density = TRUE, ellipses = TRUE, my_pp = function (x, smooth = TRUE, scale = FALSE, density = TRUE, ellipses = TRUE,
digits = 2, method = "pearson", pch = 20, lm = FALSE, cor = TRUE, digits = 2, method = "pearson", pch = 20, lm = FALSE, cor = TRUE,
jiggle = FALSE, factor = 2, hist.col = "cyan", show.points = TRUE, jiggle = FALSE, factor = 2, hist.col = "cyan", show.points = TRUE,

6
scripts/plotting/get_plotting_dfs.R
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@ -415,7 +415,7 @@ dim(corr_data_ps)
#-------------------------------------- #--------------------------------------
my_corr_colnames = c("Mutation" my_corr_colnames = c("Mutation"
, "DUET" , "DUET"
, "Foldx" , "FoldX"
#, "Mutation class" #, "Mutation class"
, "ASA" , "ASA"
, "RSA" , "RSA"
@ -476,7 +476,7 @@ if (nrow(corr_ps_df3) == nrow(merged_df3) && nrow(merged_df3_comp) == check1) {
# Data for Correlation plots: LIG # Data for Correlation plots: LIG
#================================= #=================================
cat("\n==========================================" cat("\n=========================================="
, "\nCORR PLOTS data: PS" , "\nCORR PLOTS data: LIG"
, "\n===========================================") , "\n===========================================")
df_lig = merged_df2_lig df_lig = merged_df2_lig
@ -577,7 +577,7 @@ if (nrow(corr_lig_df3) == nrow(merged_df3_lig) && nrow(merged_df3_comp_lig) == c
identical(corr_data_lig, corr_lig_df2) identical(corr_data_lig, corr_lig_df2)
identical(corr_data_ps, corr_ps_df2) identical(corr_data_ps, corr_ps_df2)
rm(df_ps, df_lig, corr_data_ps, corr_data_lig) #rm(df_ps, df_lig, corr_data_ps, corr_data_lig)
######################################################################## ########################################################################
# End of script # End of script