diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
new file mode 100644
index 00000000..73da038c
--- /dev/null
+++ b/.pre-commit-config.yaml
@@ -0,0 +1,55 @@
+---
+# See https://pre-commit.com for more information
+# See https://pre-commit.com/hooks.html for more hooks
+
+repos:
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v5.0.0
+    hooks:
+      - id: check-added-large-files
+      - id: check-ast
+      - id: check-builtin-literals
+      - id: check-docstring-first
+      - id: check-executables-have-shebangs
+      - id: check-merge-conflict
+      - id: check-symlinks
+      - id: check-json
+      - id: check-toml
+      - id: check-yaml
+      - id: debug-statements
+      - id: end-of-file-fixer
+      - id: mixed-line-ending
+      - id: name-tests-test
+      - id: requirements-txt-fixer
+      - id: trailing-whitespace
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    rev: v0.11.2 # ruff version
+    hooks:
+      - id: ruff # linter
+        args: ["--fix"]
+      - id: ruff-format # formatter
+  - repo: https://github.com/asottile/pyupgrade
+    rev: v3.19.1
+    hooks:
+      - id: pyupgrade
+        args: ["--py310-plus"]
+  - repo: https://github.com/shellcheck-py/shellcheck-py
+    rev: v0.10.0.1
+    hooks:
+      - id: shellcheck
+  - repo: https://github.com/google/yamlfmt
+    rev: v0.16.0
+    hooks:
+      - id: yamlfmt
+  - repo: https://github.com/adrienverge/yamllint
+    rev: v1.36.2
+    hooks:
+      - id: yamllint
+  - repo: https://github.com/pre-commit/mirrors-clang-format
+    rev: v18.1.3 # clang-format version
+    hooks:
+      - id: clang-format
+  - repo: https://github.com/cpplint/cpplint
+    rev: 2.0.0
+    hooks:
+      - id: cpplint
diff --git a/.pylintrc b/.pylintrc
new file mode 100644
index 00000000..fd8806b4
--- /dev/null
+++ b/.pylintrc
@@ -0,0 +1,34 @@
+[FORMAT]
+indent-string='    '
+max-line-length=120
+
+[BASIC]
+variable-rgx=(?:(?P<snake>[a-z_]+))
+
+[TYPECHECK]
+generated-members=RdBu
+
+[DESIGN]
+max-args=10
+max-locals=40
+
+[MESSAGES CONTROL]
+disable=
+    useless-suppression,
+    too-few-public-methods,
+    too-many-arguments,
+    too-many-branches,
+    too-many-instance-attributes,
+    too-many-lines,
+    too-many-locals,
+    too-many-nested-blocks,
+    too-many-positional-arguments,
+    too-many-public-methods,
+    too-many-return-statements,
+    too-many-statements
+
+[MISCELLANEOUS]
+notes=FIXME,XXX
+
+[IMPORTS]
+ignored-modules=ROOT,yaml,pandas,numpy,shap,uproot
diff --git a/.yamlfmt.yml b/.yamlfmt.yml
new file mode 100644
index 00000000..3553080f
--- /dev/null
+++ b/.yamlfmt.yml
@@ -0,0 +1,15 @@
+---
+# yamlfmt configuration
+# Reference: https://github.com/google/yamlfmt/blob/main/docs/config-file.md#configuration-1
+
+formatter:
+  type: basic
+  indent: 2
+  include_document_start: true
+  line_ending: lf
+  retain_line_breaks_single: true
+  max_line_length: -1
+  drop_merge_tag: true
+  pad_line_comments: 1
+  trim_trailing_whitespace: true
+  eof_newline: true
diff --git a/.yamllint.yml b/.yamllint.yml
new file mode 100644
index 00000000..d0af0342
--- /dev/null
+++ b/.yamllint.yml
@@ -0,0 +1,15 @@
+---
+# yamllint configuration
+# Reference: https://yamllint.readthedocs.io/en/stable/rules.html
+
+extends: default
+rules:
+  line-length:
+    max: 120
+    level: warning
+  indentation:
+    spaces: 2
+    level: warning
+  comments:
+    require-starting-space: true
+    min-spaces-from-content: 1
diff --git a/README.md b/README.md
index 5eaa0872..c46402fd 100644
--- a/README.md
+++ b/README.md
@@ -1,6 +1,7 @@
 # Run 3 validation framework
 
-[![GitHub MegaLinter](https://github.com/AliceO2Group/Run3Analysisvalidation/workflows/MegaLinter/badge.svg?branch=master)](https://github.com/marketplace/actions/megalinter)
+[![MegaLinter](https://github.com/AliceO2Group/Run3Analysisvalidation/workflows/MegaLinter/badge.svg?branch=master)](https://github.com/AliceO2Group/Run3Analysisvalidation/actions?query=workflow%3AMegaLinter+branch%3Amaster)
+[![pre-commit.ci](https://results.pre-commit.ci/badge/github/AliceO2Group/Run3AnalysisValidation/master.svg)](https://results.pre-commit.ci/latest/github/AliceO2Group/Run3AnalysisValidation/master)
 
 ## Introduction
 
diff --git a/pyproject.toml b/pyproject.toml
index edc61be3..1f5b7f63 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,12 +1,30 @@
-[tool.black]
-line-length = 120
-
-[tool.isort]
-profile = "black"
-
 [tool.pyright]
 reportMissingImports = false
 reportUnboundVariable = false
 
 [tool.ruff]
 line-length = 120
+
+[tool.ruff.lint]
+select = [ # defaults: ["E4", "E7", "E9", "F"], see https://docs.astral.sh/ruff/rules/
+  "A",    # flake8-builtins
+  "ARG",  # flake8-unused-arguments
+  "B",    # flake8-bugbear
+  "C4",   # flake8-comprehensions
+  "E",    # pycodestyle Error
+  "F",    # Pyflakes
+  "FLY",  # flynt
+  "FURB", # refurb
+  "I",    # isort
+  "NPY",  # NumPy-specific rules
+  "PD",   # pandas-vet
+  "PL",   # Pylint
+  "RUF",  # Ruff-specific rules
+  "SIM",  # flake8-simplify
+  "UP",   # pyupgrade
+  "W",    # pycodestyle Warning
+]
+ignore = [
+  "PD901", # pandas-df-variable-name
+  "PLR09", # too-many-...
+]