diff --git a/.github/workflows/snakemake.yml b/.github/workflows/snakemake.yml
new file mode 100644
index 0000000..a2286e4
--- /dev/null
+++ b/.github/workflows/snakemake.yml
@@ -0,0 +1,60 @@
+name: Run Snakemake Workflow
+
+on:
+  pull_request:
+    branches:
+      - main
+  workflow_dispatch:
+
+jobs:
+  snakemake:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+    
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Setup Miniforge
+        uses: conda-incubator/setup-miniconda@v3
+        with:
+          miniforge-variant: Miniforge3
+          miniforge-version: latest
+          activate-environment: snakemake
+          use-mamba: true
+      
+      - name: Install mamba
+        shell: bash -el {0}
+        run: |
+          conda install -n base -c conda-forge mamba
+      
+      - name: Install Snakemake
+        shell: bash -el {0}
+        run: |
+          mamba install -c conda-forge -c bioconda snakemake
+      
+      - name: Run Snakemake workflow
+        shell: bash -el {0}
+        run: |
+          cd workflow
+          snakemake --use-conda --cores 1
+      
+      - name: Check logs
+        shell: bash -el {0}
+        run: |
+          tail -1000 log/*log
+          # cat workflow/output/hello_output.txt
+          # if [ "$(cat workflow/output/hello_output.txt)" = "Hello World!" ]; then
+          #   echo "✓ Output verified successfully!"
+          # else
+          #   echo "✗ Output verification failed!"
+          #   exit 1
+          # fi
+      
+      - name: Upload output artifact
+        uses: actions/upload-artifact@v4
+        if: always()
+        with:
+          name: workflow-output
+          path: workflow/output/
diff --git a/.gitignore b/.gitignore
new file mode 100644
index 0000000..e2e21b2
--- /dev/null
+++ b/.gitignore
@@ -0,0 +1,5 @@
+build/
+output/
+.snakemake/
+_codeql_detected_source_root
+src/_codeql_build_dir/
diff --git a/README.md b/README.md
index 69082c7..0aa4b4c 100644
--- a/README.md
+++ b/README.md
@@ -1,2 +1,39 @@
 # drab
+
 RNA-seq count tables, revisited
+
+### Structure
+
+- `src/`: Contains C++ source code and CMakeLists.txt
+- `env/`: Contains Conda environment specifications
+- `workflow/`: Contains Snakefile for build automation
+
+### Running with snmk
+
+To build and run the example using Snakemake:
+
+```bash
+cd workflow
+snakemake --use-conda --cores 1
+```
+
+This will:
+1. Create a conda environment with cmake and g++
+2. Compile the C++ code
+3. Run the executable and save output to `output/hello_output.txt`
+
+### Building `src`
+
+To build manually without Snakemake:
+
+```bash
+mkdir -p build
+cd build
+cmake ../src
+cmake --build .
+./hello
+```
+
+### CI/CD
+
+- `snakemake.yml` to run the workflow (serially)
diff --git a/env/build.yaml b/env/build.yaml
new file mode 100644
index 0000000..ba76db2
--- /dev/null
+++ b/env/build.yaml
@@ -0,0 +1,7 @@
+channels:
+  - conda-forge
+  - bioconda
+  - nodefaults
+dependencies:
+  - cmake>=4.1
+  - cxx-compiler
diff --git a/src/CMakeLists.txt b/src/CMakeLists.txt
new file mode 100644
index 0000000..9e27484
--- /dev/null
+++ b/src/CMakeLists.txt
@@ -0,0 +1,8 @@
+cmake_minimum_required(VERSION 3.10)
+
+project(HelloWorld)
+
+set(CMAKE_CXX_STANDARD 11)
+set(CMAKE_CXX_STANDARD_REQUIRED True)
+
+add_executable(hello hello.cpp)
diff --git a/src/hello.cpp b/src/hello.cpp
new file mode 100644
index 0000000..ff68290
--- /dev/null
+++ b/src/hello.cpp
@@ -0,0 +1,6 @@
+#include <iostream>
+
+int main() {
+    std::cout << "Hello World!" << std::endl;
+    return 0;
+}
diff --git a/workflow/Snakefile b/workflow/Snakefile
new file mode 100644
index 0000000..a2d7e7d
--- /dev/null
+++ b/workflow/Snakefile
@@ -0,0 +1,38 @@
+#!/usr/bin/env snakemake -s
+
+rule all:
+    input:
+        "output/hello_output.txt"
+
+rule compile:
+    conda:
+        "../env/build.yaml"
+    input:
+        cpp="src/hello.cpp",
+        cmake="src/CMakeLists.txt"
+    log:
+        "../log/compile.log"
+    output:
+        "build/hello"
+    shell:
+        """
+        mkdir -p build log
+        cd build
+        cmake ../src &> {log}
+        cmake --build . &>> {log}
+        """
+
+rule run:
+    conda:
+        "../env/build.yaml"
+    input:
+        "build/hello"
+    output:
+        "output/hello_output.txt"
+    log:
+        "log/run.log"
+    shell:
+        """
+        mkdir -p output
+        {input} > {output} &> {log}
+        """
diff --git a/workflow/src b/workflow/src
new file mode 120000
index 0000000..e057607
--- /dev/null
+++ b/workflow/src
@@ -0,0 +1 @@
+../src/
\ No newline at end of file