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+# Nextflow on Google Batch
+
+This guide provides instructions for running the Nextflow [`rnaseq-nf`](https://github.com/nextflow-io/rnaseq-nf) pipeline sample on Google Cloud Batch.
+
+## References
+
+*   [Nextflow Installation](https://docs.seqera.io/nextflow/install)
+*   [Nextflow on Google Cloud Batch](https://docs.cloud.google.com/batch/docs/nextflow)
+
+## Reference Architecture
+
+<img src="img/nextflow-w-batch-reference.png" alt="Nextflow on Google Cloud Batch" width="800">
+
+## Prerequisites
+
+1.  **Install Nextflow:**
+    Follow the instructions from the [Nextflow installation guide](https://docs.seqera.io/nextflow/install). User can operate Nextflow at "anywhere" including Cloud Shell, Cloudtop or local machine.
+
+2.  **Enable Google Cloud APIs:**
+    Ensure you have enabled the necessary APIs in your GCP project:
+    *   Batch API (`batch.googleapis.com`)
+    *   Compute Engine API (`compute.googleapis.com`)
+    *   Cloud Storage API (`storage.googleapis.com`)
+
+3.  **Google Cloud Storage (GCS) Bucket:**
+    Create a GCS bucket to store the pipeline's work directory and output files.
+
+4.  **Authentication:**
+    Authenticate your environment with Google Cloud:
+    ```bash
+    gcloud auth login
+    gcloud auth application-default login
+    ```
+
+## Configuration
+
+User can leverage the `nextflow.config` file in this repo to configure Nextflow to use Google Batch as the executor
+
+Please make sure updating the following parameters according to your GCP setup.
+
+```bash
+params.bucketname  = '<your bucket name>'
+params.gcp_project = '<your gcp project>'
+params.network_name = 'default'
+params.subnet_name = 'default'
+params.location = 'us-central1'
+```
+
+## Clone the sample rnaseq-nf git
+
+git clone https://github.com/nextflow-io/rnaseq-nf.git
+
+## Running the sample rnaseq-nf Pipeline
+
+Once you have your `nextflow.config` file set up, you can run the `rnaseq-nf` sample pipeline with the following command:
+
+```bash
+./nextflow run rnaseq-nf -profile google-batch
+```
+
+Nextflow will automatically parse the config in the current directory, provision the necessary resources on Google Cloud Batch, and execute the pipeline steps.
+
+## Monitoring
+
+You can monitor the status and execution of your pipeline jobs directly in the Google Cloud Batch Jobs Console.
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+manifest {
+    description = 'Proof of concept of a RNA-seq pipeline implemented with Nextflow'
+    author = 'Paolo Di Tommaso'
+    nextflowVersion = '>=25.10.0'
+}
+
+/*
+ * publish settings
+ */
+workflow.output.mode = 'copy'
+
+/*
+ * execution profiles for different environments
+ */
+process {
+    // Default resources for all processes
+    memory = '16 GB'
+    machineType = 'n2-standard-8' // VM type for cloud executors like Google Batch
+    
+    // Specific configurations for the INDEX process
+    withName: 'INDEX' {
+        memory = '16 GB'
+        machineType = 'n2-standard-8'
+        cpus = 4
+    }
+}
+
+ profiles {
+     'google-batch' {
+        params.transcriptome = 'gs://rnaseq-nf/data/ggal/transcript.fa'
+        params.reads = 'gs://rnaseq-nf/data/ggal/gut_{1,2}.fq'
+        params.multiqc = 'gs://rnaseq-nf/multiqc'
+        params.bucketname  = '<your bucket name>'
+        params.gcp_project = '<your gcp project>'
+        params.network_name = 'default'
+        params.subnet_name = 'default'
+        params.location = 'us-central1'
+
+        process.executor = 'google-batch'
+        process.container = 'docker.io/nextflow/rnaseq-nf:v1.3.1'
+
+        workDir = "gs://${params.bucketname}/scratch"
+        google.location = 'us-central1'
+        google.project = params.gcp_project
+        google.batch.allowedLocations = ['regions/us-central1']
+        /*
+        * adding network information if not using default network
+        */
+        google.batch.network = "global/networks/${params.network_name}"
+        google.batch.subnetwork = "regions/${params.location}/subnetworks/${params.subnet_name}"
+    } 
+ }
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