This is an online and free textbook that covers the essential Bash scripting skills you’ll need to do execute work on the DNAnexus cloud platform.

Links

Book Repository

Learning Objectives

Apply bash scripting to your own work
Articulate basic Cloud Computing concepts that apply to the DNAnexus platform
Leverage bash scripting and the dx-toolkit to execute jobs on the DNAnexus platform
Execute batch processing of multiple files in a project on the DNAnexus platform
Monitor, profile, terminate and retry jobs to optimize costs
Manage software dependencies reproducibly using container-based technologies such as Docker

Citation

BibTeX citation:

@online{laderas2023,
  author = {Laderas, Ted},
  title = {Bash for {Bioinformatics}},
  date = {2023-05-01},
  url = {https://laderast.github.io/edu/2022-10-10-bash-for-bioinformatics/},
  langid = {en}
}

For attribution, please cite this work as:

Laderas, Ted. 2023. “Bash for Bioinformatics.” May 1, 2023. https://laderast.github.io/edu/2022-10-10-bash-for-bioinformatics/.