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zfp36l2_paper_analysis's Introduction

Zfp36l2 Paper Analysis

This repository contains all of the necessary scripts and metadata to reproduce the RNA-Seq analysis in the Zfp36l2 paper.

Steps to reproduce the analysis

  1. You must be using a Linux or MacOS X system.

  2. Please make sure bioconda installed on your system. If you do not, go to this website and follow at least step 1.

  3. Make sure you have Snakemake installed on your system. Please follow the instructions at this website

  4. Clone this repository onto your computer.

  5. Make sure the raw data is contained in the data directory.

  6. Run the run_analysis.sh bash script. This will initialize the conda environment, make sure the appropriate R packages are installed, initialize the annotations & metadata, and run the analysis.

Any problems? Questions?

If there are any problems running the pipeline or any questions about the analysis, please submit an issue.

Remaining to-dos

  • Clean up conda environment yaml file with only essential packages

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