diff --git a/processes/aucell.nf b/processes/aucell.nf
index 9609dfb..be43e21 100644
--- a/processes/aucell.nf
+++ b/processes/aucell.nf
@@ -40,6 +40,7 @@ process AUCELL {
                 throw new Exception("walltime is missing in params.sc.scenic.aucell")
         }
         outputFileName = "numRuns" in toolParams && toolParams.numRuns > 1 ? sampleId + "__run_" + runId +"__auc_" + type + ".loom": sampleId + "__auc_" + type + ".loom"
+        seed = "numRuns" in toolParams && toolParams.numRuns > 1 ? (params.seed + runId) : params.seed
         """
         pyscenic aucell \
             $filteredLoom \
@@ -47,6 +48,7 @@ process AUCELL {
             -o "${outputFileName}" \
             --cell_id_attribute ${toolParams.cell_id_attribute} \
             --gene_attribute ${toolParams.gene_attribute} \
+            --seed ${seed} \
             --num_workers ${processParams.numWorkers}
         """
 
diff --git a/scenic.config b/scenic.config
index bcc7bc0..ed29d07 100644
--- a/scenic.config
+++ b/scenic.config
@@ -21,7 +21,6 @@ params {
             gene_attribute = 'Gene'
             grn {
                 algorithm = 'grnboost2' // also available: 'genie3'
-                seed = ''
                 // cluster options:
                 pmem = '2gb'
                 maxForks = 1