diff --git a/conf/references.config b/conf/references.config
index 28b4f1e..7e56eee 100644
--- a/conf/references.config
+++ b/conf/references.config
@@ -16,6 +16,16 @@ params {
             genome_fa: "/mnt/galaxy/galaxyworks/tool-data/t2t_2.0_eschColi_K12_bs_controls/bwameth_index/t2t_2.0_eschColi_K12_bs_controls/t2t_2.0_eschColi_K12_bs_controls.fa",
             genome_fai: "/mnt/galaxy/galaxyworks/tool-data/t2t_2.0_eschColi_K12_bs_controls/bwameth_index/t2t_2.0_eschColi_K12_bs_controls/t2t_2.0_eschColi_K12_bs_controls.fa.fai",
         ],
+        'arabidopsis_thaliana_TAIR12_bs_controls': [
+            bwa_index: "/bioinfo/ref/arabidopsis_thaliana_TAIR12_bs_controls/bwameth/arabidopsis_thaliana_TAIR12_bs_controls.fa",
+            genome_fa: "/bioinfo/ref/arabidopsis_thaliana_TAIR12_bs_controls/bwameth/arabidopsis_thaliana_TAIR12_bs_controls.fa",
+            genome_fai: "/bioinfo/ref/arabidopsis_thaliana_TAIR12_bs_controls/bwameth/arabidopsis_thaliana_TAIR12_bs_controls.fa.fai",
+        ],
+        't2t_chm13_v2+meth_controls+m13+phix': [
+            bwa_index: "/bioinfo/ref/t2t_chm13_v2+meth_controls+m13+phix/bwameth/t2t_chm13_v2+meth_controls+m13+phix.fa",
+            genome_fa: "/bioinfo/ref/t2t_chm13_v2+meth_controls+m13+phix/bwameth/t2t_chm13_v2+meth_controls+m13+phix.fa",
+            genome_fai: "/bioinfo/ref/t2t_chm13_v2+meth_controls+m13+phix/bwameth/t2t_chm13_v2+meth_controls+m13+phix.fa.fai",
+        ],
         'test': [
             bwa_index: "${projectDir}/tests/fixtures/reference_files/reference.fa",
             genome_fa: "${projectDir}/tests/fixtures/reference_files/reference.fa",