diff --git a/docker_analysis.sh b/docker_analysis.sh
index d701a028b82475945bc5d65d98837ee67562accd..b3ffa656a1fc82ef75f22a0900f9b542344b7979 100755
--- a/docker_analysis.sh
+++ b/docker_analysis.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-R_CMD="-e criblejurkat::analysis(\"/root/\")"
+R_CMD="-e criblejurkat::analysis(\"/root/${1}\")"
 docker run -it --volume $(pwd):/root/ lbmc/criblejurkat:1.0.0 R $R_CMD
 BASH_CMD="-e system(\"chown -R $(id -u ${USER}) /root/\")"
 docker run -it --volume $(pwd):/root/ lbmc/criblejurkat:1.0.0 R $BASH_CMD
diff --git a/singularity_analysis.sh b/singularity_analysis.sh
index 997b560f7af3b7c6fabb65990d7476039d8a45f0..786b1eefe94f95cd5924d445c7dc5c5a3381b5f4 100755
--- a/singularity_analysis.sh
+++ b/singularity_analysis.sh
@@ -1,3 +1,3 @@
 #!/bin/bash
-R_CMD="-e criblejurkat::analysis(\"$(pwd)\")"
+R_CMD="-e criblejurkat::analysis(\"${1}\")"
 singularity exec docker://lbmc/criblejurkat:1.0.0 R $R_CMD