Simple Linux - Zenodo

Simple Linux – An Introduction to Genomic Analysis on Linux

• To view the tutorial locally, open /docs/index.html in your browser.

• The index page contains link to the online version of the tutorial too.

• /assets/250416_atkacz folder contains:

  • All bash commands: course_linux_commands`
  • Training text file: maria_joanna_song
  • Invented metadata: metadata.csv
  • ASV table: from the pulled data from ncbi, ASV_table_MA.txt
  • Python utilities: for display (pcoa_with_metadata_quick_work.py, visualize_braycurtis.ipynb) and for statistical computation (compute_braycurtis.ipynb, append_braycurtis). Additional saved outputs are located in ./saved_matrices/

To install python dependencies, run:

pip install -r requirements.txt

, located at the root of the repository