From 01c053ffdac93a64c3dc45f37e3de522742f1f7c Mon Sep 17 00:00:00 2001
From: Anugerah Erlaut <aerlaut@live.com>
Date: Mon, 8 May 2023 10:29:08 +0100
Subject: [PATCH] cleanup unused scripts

---
 convert_csv_count_matrices.R | 21 ---------------------
 rename_folders.py            | 16 ----------------
 2 files changed, 37 deletions(-)
 delete mode 100644 convert_csv_count_matrices.R
 delete mode 100644 rename_folders.py

diff --git a/convert_csv_count_matrices.R b/convert_csv_count_matrices.R
deleted file mode 100644
index 9e63942..0000000
--- a/convert_csv_count_matrices.R
+++ /dev/null
@@ -1,21 +0,0 @@
-library(data.table)
-library(Matrix)
-library(fs)
-
-data_dir <- path_abs("./data/GSE150115_RAW/")
-
-
-dir_create(path(data_dir, "out2"))
-
-for (file in path_file(dir_ls(data_dir, glob = "*.gz"))) {
-  dirname <- gsub("\\.fastq.*", "",file)
-  
-  dt <- fread(path(data_dir, file))
-  dt <- as.matrix(dt, rownames = 1)
-  dt <- Matrix::Matrix(dt, sparse = T)
-  
-  DropletUtils::write10xCounts(path(data_dir, "out2", dirname), x = dt)
-  rm(dt)
-  gc()
-  
-}
diff --git a/rename_folders.py b/rename_folders.py
deleted file mode 100644
index a97d7a8..0000000
--- a/rename_folders.py
+++ /dev/null
@@ -1,16 +0,0 @@
-import json
-import os
-
-originalsPath = "input/"
-
-projectFolder = ""
-
-path = originalsPath + projectFolder
-
-with open('samples.json', 'r') as f:
-  samples = json.load(f)
-
-for i in samples["samples"]:
-	sampleName = samples["samples"][i]["name"]
-	os.rename(path+i, path+sampleName)
-	print("Renamed "+ i +" to " + sampleName)