diff --git a/src/nf_modules/Kallisto/kallisto.config b/src/nf_modules/Kallisto/kallisto.config
index 1a92bb1f4165e5b1e3f1d1f46a7b60716242f64f..da7f54e0dfa345ef1b599ce328ceca40747dd9c6 100644
--- a/src/nf_modules/Kallisto/kallisto.config
+++ b/src/nf_modules/Kallisto/kallisto.config
@@ -4,17 +4,17 @@ profiles {
     docker.enabled = true
     process {
       $index_fasta {
-        container = "kallisto:0.43.1"
+        container = "kallisto:0.44.0"
       }
       $mapping_fastq {
-        container = "kallisto:0.43.1"
+        container = "kallisto:0.44.0"
       }
     }
   }
   sge {
     process{
       $index_fasta {
-        beforeScript = "module purge; module load Kallisto/0.43.1"
+        beforeScript = "module purge; module load Kallisto/0.44.0"
         executor = "sge"
         cpus = 1
         memory = "5GB"
@@ -25,7 +25,7 @@ profiles {
         penv = 'openmp8'
       }
       $mapping_fastq {
-        beforeScript = "module purge; module load Kallisto/0.43.1"
+        beforeScript = "module purge; module load Kallisto/0.44.0"
         executor = "sge"
         cpus = 4
         memory = "5GB"