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fix HARDCODED HOMEDIRS

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This commit is contained in:
Tanushree Tunstall 2023-02-19 18:01:03 +00:00
parent db7e2912e1
commit 1571f430a5
50 changed files with 78 additions and 78 deletions
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4
scripts/plotting/plotting_thesis/rpob/basic_barplots_rpob_layout.R
View file

@ -26,8 +26,8 @@ table(df3_ppi2$sensitivity)
outdir_images = paste0("~/git/Writing/thesis/images/results/", tolower(gene), "/")
cat("plots will output to:", outdir_images)
source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/basic_barplots_rpob.R")
source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/pe_sens_site_count_rpob.R")
source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/basic_barplots_rpob.R")
source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/pe_sens_site_count_rpob.R")
if ( tolower(gene)%in%c("rpob") ){
cat("\nPlots available for layout are:")

4
scripts/plotting/plotting_thesis/rpob/dm_om_plots_layout_rpob.R
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@ -1,6 +1,6 @@
# source dm_om_plots.R
source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/dm_om_plots_rpob.R")
# source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/dm_om_plots.R")
source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/dm_om_plots_rpob.R")
# source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/dm_om_plots.R")
##### plots to combine ####
duetP

4
scripts/plotting/plotting_thesis/rpob/gg_pairs_all_rpob.R
View file

@ -160,7 +160,7 @@ plot_corr_df_aff = my_gg_pairs(corr_df_aff
)
#### Combine plots #####
# #png("/home/tanu/tmp/gg_pairs_all.png", height = 6, width=11.75, unit="in",res=300)
# #png("~/tmp/gg_pairs_all.png", height = 6, width=11.75, unit="in",res=300)
# png(paste0(outdir_images
# ,tolower(gene)
# ,"_CorrAB.png"), height = 6, width=11.75, unit="in",res=300)
@ -176,7 +176,7 @@ plot_corr_df_aff = my_gg_pairs(corr_df_aff
# dev.off()
#
# # affinity corr
# #png("/home/tanu/tmp/gg_pairs_affinity.png", height =7, width=7, unit="in",res=300)
# #png("~/tmp/gg_pairs_affinity.png", height =7, width=7, unit="in",res=300)
# png(paste0(outdir_images
# ,tolower(gene)
# ,"_CorrC.png"), height =7, width=7, unit="in",res=300)

4
scripts/plotting/plotting_thesis/rpob/pe_sens_site_count_rpob.R
View file

@ -1,5 +1,5 @@
source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/prominent_effects_rpob.R")
source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/sensitivity_count_rpob.R")
source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/prominent_effects_rpob.R")
source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/rpob/sensitivity_count_rpob.R")
##############################################################
# PE count

2
scripts/plotting/plotting_thesis/rpob/rpob_other_plots.R
View file

@ -1,2 +1,2 @@
source("/home/tanu/git/LSHTM_analysis/scripts/plotting/plotting_thesis/linage_bp_dist_layout.R")
source("~/git/LSHTM_analysis/scripts/plotting/plotting_thesis/linage_bp_dist_layout.R")