BioJupies Demo Part 1 of 6 - Introduction

BioJupies, a web server application that enables automated creation, storage, and deployment of Jupyter Notebooks containing RNA-seq data analyses. Through an intuitive interface, novice users can rapidly generate tailored reports to analyze and visualize their own raw sequencing files, their gene expression tables, or fetch data from published studies. Generated notebooks have executable code of the entire pipeline, rich narrative text, interactive data visualizations, and differential expression and enrichment analyses. The notebooks are permanently stored in the cloud and made available online through a persistent URL. The notebooks are downloadable, customizable, and can run within a Docker container. In this video we provide an introduction to the BioJupies project.

BioJupies is freely available as a web-based application from:

The BioJupies Chrome extension is available from the Chrome Web Store at:

A pre-print article that describes the project is available at:

Playlist for BioJupies Demo - Automatically Generated Jupyter Notebook Reports for RNA-seq Data Analysis:

BioJupies Demo Part 1 of 6 - Introduction:

BioJupies Demo Part 2 of 6 - Aligning FASTQ Files:

BioJupies Demo Part 3 of 6 - Generating a Jupyter Notebook:

BioJupies Demo Part 4 of 6 - Exploring a Jupyter Notebook:

BioJupies Demo Part 5 of 6 - Using the Chrome Extension:

BioJupies Demo Part 6 of 6 - Reusing Notebooks: