https://github.com/MonashBioinformaticsPlatform/bioconda-tutorial

A quick overview of how to use Bioconda, and create recipes
https://github.com/MonashBioinformaticsPlatform/bioconda-tutorial

bioconda bioinformatics tutorial

Last synced: 3 months ago
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A quick overview of how to use Bioconda, and create recipes

• Host: GitHub
• URL: https://github.com/MonashBioinformaticsPlatform/bioconda-tutorial
• Owner: MonashBioinformaticsPlatform
• License: cc0-1.0
• Created: 2018-01-31T02:42:20.000Z (about 7 years ago)
• Default Branch: master
• Last Pushed: 2018-12-12T05:36:40.000Z (about 6 years ago)
• Last Synced: 2024-07-25T06:46:26.414Z (7 months ago)
• Topics: bioconda, bioinformatics, tutorial
• Language: Jupyter Notebook
• Homepage: https://monashbioinformaticsplatform.github.io/bioconda-tutorial/
• Size: 1.8 MB
• Stars: 6
• Watchers: 6
• Forks: 4
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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• awesome-proteomics - conda/bioconda

README

        
# Conda and Bioconda for bioinformatics tools: a short tutorial



[![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/MonashBioinformaticsPlatform/bioconda-tutorial/master?filepath=Bioconda_Installation.ipynb)

This tutorial covers the basics of setting up the `conda` tool to install bioinformatics tools from [Bioconda](https://bioconda.github.io/) and producing "reproducible environments" as a foundation for your own analysis or pipeline. You don't need `sudo`.

* View the [tutorial notebook](https://github.com/MonashBioinformaticsPlatform/bioconda-tutorial/blob/master/Bioconda_Installation.ipynb).

* Or as [slides](https://monashbioinformaticsplatform.github.io/bioconda-tutorial/#/)

# Requirements:

Just reading the [Jupyter notebook](https://github.com/MonashBioinformaticsPlatform/bioconda-tutorial/blob/master/Bioconda_Installation.ipynb) right here on Github and cut'n'pasting into your terminal is probably all you need.

However, if you'd like to run this notebook on your computer, you will need:

* Jupyter Notebook (or JupyterLab)

* Jupyter Bash Kernel: https://github.com/takluyver/bash_kernel

If you've cloned the repository, to view the slides locally.

```bash

run_slides.h

```