add 1000G_EUR_Phase3_plink/1000G.EUR.QC.@.[bed,bim,fam]

comorment · Sep 11, 2024 · e1ee16a · e1ee16a
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -7,6 +7,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [Unreleased]
 
+- Added ``reference/ldsc/1000G_EUR_Phase3_plink/1000G.EUR.QC.@.[bed,bim,fam]`` files, to simplify steps for MAGMA analysis in GSA-MiXeR protocol
+
 ### Updated
 
 - Updated PLINK2.0 (20240516)

diff --git a/reference/ldsc/1000G_EUR_Phase3_plink/.gitattributes b/reference/ldsc/1000G_EUR_Phase3_plink/.gitattributes
@@ -150,3 +150,7 @@
 1000G.EUR.QC.5.fam filter=lfs diff=lfs merge=lfs -text
 1000G.EUR.QC.5.run4.ld filter=lfs diff=lfs merge=lfs -text
 1000G.EUR.QC.1.fam filter=lfs diff=lfs merge=lfs -text
+[email protected] filter=lfs diff=lfs merge=lfs -text
+[email protected] filter=lfs diff=lfs merge=lfs -text
+[email protected] filter=lfs diff=lfs merge=lfs -text
+[email protected] filter=lfs diff=lfs merge=lfs -text
diff --git a/reference/ldsc/1000G_EUR_Phase3_plink/[email protected] b/reference/ldsc/1000G_EUR_Phase3_plink/[email protected]
diff --git a/reference/ldsc/1000G_EUR_Phase3_plink/[email protected] b/reference/ldsc/1000G_EUR_Phase3_plink/[email protected]
diff --git a/reference/ldsc/1000G_EUR_Phase3_plink/[email protected] b/reference/ldsc/1000G_EUR_Phase3_plink/[email protected]
diff --git a/reference/ldsc/1000G_EUR_Phase3_plink/commands.txt b/reference/ldsc/1000G_EUR_Phase3_plink/commands.txt
@@ -0,0 +1,3 @@
+seq 2 22 | parallel echo "1000G.EUR.QC.{}" > merge_list.txt
+plink --bfile 1000G.EUR.QC.1 --merge-list merge_list.txt --make-bed --out 1000G.EUR.QC.@
+
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1,3 @@
		seq 2 22 \| parallel echo "1000G.EUR.QC.{}" > merge_list.txt
		plink --bfile 1000G.EUR.QC.1 --merge-list merge_list.txt --make-bed --out 1000G.EUR.QC.@