Genomics to Notebook (g2nb): Extending the Electronic Notebook to Address the Challenges of Bioinformatics Analysis

Author(s): Michael Reich, Thorin Tabor, Ted Liefeld, Jayadev Joshi, Forrest Kim, Edwin Huang, Helga Thorvaldsdottir, Daniel Blankenberg, Jill P Mesirov.

We present Genomics to Notebook (g2nb), an environment that combines the JupyterLab notebook system with widely-used bioinformatics platforms. The analyses and visualizations within those platforms are presented as cells in a notebook, making thousands of genomics methods available within the notebook metaphor and allowing notebooks to contain workflows utilizing multiple software packages on remote servers, all without the need for programming.