Remove uneeded files and rename for clarity

analysis/null.Rmd

----
-title: "Untitled"
-output: html_document
----
-
-```{r setup, include=FALSE}
-knitr::opts_chunk$set(echo = TRUE)
-```
-
-```{r libraries}
-library(SingleCellExperiment)
-library(scran)
-library(scater)
-```
-
-
-```{r visualise-null-data}
-config <- yaml::read_yaml(here::here("config.yaml"))
-
-pars <- retrive_simulation_parameters()
-
-sim_files <- paste0(pars$sim_name, ".rds")
-sim_paths <- here::here(config$sim_data_folder, sim_files)
-
-test_null <- readRDS(sim_paths[[1]])
-
-plotPCA(splatter_sim, colour_by = "Group")
-
-splatter_sim <- runTSNE(splatter_sim, dimred = "PCA")
-plotTSNE(splatter_sim, colour_by = "Group")
-
-
-
-```
-
-

analysis/p-value-histograms.Rmd

----
-title: "p value histograms"
-output: html_document
----
-
-```{r setup, include=FALSE}
-knitr::opts_chunk$set(echo = TRUE)
-```
-
-```{r libraries}
-library(ggplot2)
-library(SingleCellExperiment)
-```
-
-```{r load-data}
-pars <- retrive_simulation_parameters()
-
-umgs <- list()
-sumgs <- list()
-for (i in seq_along(sim_paths)) {
-  print(i)
-  sim <- readRDS(sim_paths[[i]])
-  umgs[[i]] <- find_unique_marker_genes(sim)
-  sumgs[[i]] <- find_semi_unique_marker_genes(sim)
-  rm(sim)
-}
-```