auwerxlab_workflow.ipynb

This IPython notebook provides all the steps to setup and perform the data analysis using the auwerxlab infrastructure.

In particular, it provides steps to work with RENKU and the SLIMS laboratory information management system.

File

auwerxlab_workflow.ipynb

Requirements

  • RENKU account

  • SLIMS laboratory information management system

Structure

  1. Setup

  2. Download counts data from a SLIMS ELN attachment step

  3. Create a RENKU dataset for the counts data

  4. Analyze the counts data

  5. Create a RENKU dataset for the analysis results

  6. Upload the results into SLIMS

  7. Save your work in RENKU!