diff --git a/.gitignore b/.gitignore
new file mode 100644
index 0000000000000000000000000000000000000000..5b6a0652566d10360493952aec6d4a4febc77083
--- /dev/null
+++ b/.gitignore
@@ -0,0 +1,4 @@
+.Rproj.user
+.Rhistory
+.RData
+.Ruserdata
diff --git a/assays/cmQTL_val1_GH_2020_GC_MS/dataset/MAF_GC_MS.xlsx b/assays/cmQTL_val1_GH_2020_GC_MS/dataset/MAF_GC_MS.xlsx
new file mode 100644
index 0000000000000000000000000000000000000000..7bd24a801baa7802164201f4c0d419330560a21d
--- /dev/null
+++ b/assays/cmQTL_val1_GH_2020_GC_MS/dataset/MAF_GC_MS.xlsx
@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:418ee94bfb5c89f06b385367b042997416434a8b48b66d3adfa72aa100ea9af5
+size 27833
diff --git a/assays/cmQTL_val1_GH_2020_GC_MS/isa.assay.xlsx b/assays/cmQTL_val1_GH_2020_GC_MS/isa.assay.xlsx
index 3525c21ed6eeb9204b5fcee96e88ba9acd8d5e71..46d812e8dea29a26a5a9ad136956fc45d8381765 100644
Binary files a/assays/cmQTL_val1_GH_2020_GC_MS/isa.assay.xlsx and b/assays/cmQTL_val1_GH_2020_GC_MS/isa.assay.xlsx differ
diff --git a/cmQTL_val1_arc.Rproj b/cmQTL_val1_arc.Rproj
new file mode 100644
index 0000000000000000000000000000000000000000..8e3c2ebc99e2e337f7d69948b93529a437590b27
--- /dev/null
+++ b/cmQTL_val1_arc.Rproj
@@ -0,0 +1,13 @@
+Version: 1.0
+
+RestoreWorkspace: Default
+SaveWorkspace: Default
+AlwaysSaveHistory: Default
+
+EnableCodeIndexing: Yes
+UseSpacesForTab: Yes
+NumSpacesForTab: 2
+Encoding: UTF-8
+
+RnwWeave: Sweave
+LaTeX: pdfLaTeX
diff --git a/studies/cmQTL_val1_GH_2020/isa.study.xlsx b/studies/cmQTL_val1_GH_2020/isa.study.xlsx
index 96504e1767ca8a566955d1d32dfd904874b2f778..b165aaf2a3373c6687c8f5b762423c53619a8b20 100644
Binary files a/studies/cmQTL_val1_GH_2020/isa.study.xlsx and b/studies/cmQTL_val1_GH_2020/isa.study.xlsx differ
diff --git a/workflows/GC_MS_normalization/210927_primary_normalization_with_split.R b/workflows/GC_MS_normalization/210927_primary_normalization_with_split.R
index 641268852b0beaf65953ebe36dfd6c593c7cc97d..4a0e92ba6dac7cefaa98bf14e2b6478c1e3da928 100644
--- a/workflows/GC_MS_normalization/210927_primary_normalization_with_split.R
+++ b/workflows/GC_MS_normalization/210927_primary_normalization_with_split.R
@@ -1,9 +1,4 @@
 rm(list = ls())
-#setwd(dirname(rstudioapi::getActiveDocumentContext()$path))
-#getwd()
-#current <- getwd()
-#source <- ".."
-
 
 library(openxlsx)
 library(tidyverse)
@@ -31,7 +26,6 @@ if (file.exists(out)) {
   dir.create(out)
 }
 setwd(here())# Not recommended but convenient in Rstudio to start from root
-#out_dir <- str_c(current, out, sep = "/")
 
 # Data loading ------------------------------------------------------------