diff --git a/nf_core/pipeline-template/pyproject.toml b/nf_core/pipeline-template/pyproject.toml
index 1ed87cee5b..0d62beb6f9 100644
--- a/nf_core/pipeline-template/pyproject.toml
+++ b/nf_core/pipeline-template/pyproject.toml
@@ -3,3 +3,8 @@
 [tool.black]
 line-length = 120
 target_version = ["py37", "py38", "py39", "py310"]
+
+[tool.isort]
+profile = "black"
+known_first_party = ["nf_core"]
+multi_line_output = 3