diff --git a/modules/local/cooltools/eigscis.nf b/modules/local/cooltools/eigscis.nf
index 0393bb9..dfc2148 100644
--- a/modules/local/cooltools/eigscis.nf
+++ b/modules/local/cooltools/eigscis.nf
@@ -26,7 +26,7 @@ process COOLTOOLS_EIGSCIS {
     """
     cooltools genome binnify --all-names ${chrsize} ${resolution} > genome_bins.txt
     cooltools genome gc genome_bins.txt ${fasta} > genome_gc.txt
-    cooltools eigs-cis ${args} -o ${prefix}_compartments ${cool}
+    cooltools eigs-cis ${args} --phasing-track genome_gc.txt -o ${prefix}_compartments ${cool}
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":