diff --git a/.nf-core.yml b/.nf-core.yml
index f945d00c..558d7eee 100644
--- a/.nf-core.yml
+++ b/.nf-core.yml
@@ -18,5 +18,5 @@ template:
   org: nf-core
   outdir: .
   skip_features: null
-  version: 3.2.1
+  version: 3.3.0dev
 update: null
diff --git a/CHANGELOG.md b/CHANGELOG.md
index f7b929e3..1e6ad844 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -3,6 +3,18 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## dev [unreleased]
+
+### `Added`
+
+### `Changed`
+
+### `Fixed`
+
+### `Dependencies`
+
+### `Deprecated`
+
 ## 3.2.1 [2024-10-30]
 
 ### `Added`
diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml
index 434dfa7b..fe8d388f 100644
--- a/assets/multiqc_config.yml
+++ b/assets/multiqc_config.yml
@@ -1,7 +1,7 @@
 report_comment: >
-  This report has been generated by the <a href="https://github.com/nf-core/mag/releases/tag/3.2.1" target="_blank">nf-core/mag</a>
+  This report has been generated by the <a href="https://github.com/nf-core/mag/tree/dev" target="_blank">nf-core/mag</a>
   analysis pipeline. For information about how to interpret these results, please see the
-  <a href="https://nf-co.re/mag/3.2.1/docs/output" target="_blank">documentation</a>.
+  <a href="https://nf-co.re/mag/dev/docs/output" target="_blank">documentation</a>.
 report_section_order:
   "nf-core-mag-methods-description":
     order: -1000
diff --git a/nextflow.config b/nextflow.config
index 4c5e67fa..07325acf 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -375,7 +375,7 @@ manifest {
     description     = """Assembly, binning and annotation of metagenomes"""
     mainScript      = 'main.nf'
     nextflowVersion = '!>=24.04.2'
-    version         = '3.2.1'
+    version         = '3.3.0dev'
     doi             = '10.1093/nargab/lqac007'
 }