colindaven / wochenende_manuscript

Code accompanying the Wochenende metagenomics analyzer manuscript

Wochenende manuscript

This is the code and data used for running the programs associated with the mock community analyses for the Wochenende manuscript.

Repo Authors:

Colin Davenport

Ilona Rosenboom

Sophia Poertner

Citation: Rosenboom, Scheithauer et al. Biorxiv 2022 https://www.biorxiv.org/content/10.1101/2022.03.18.484377v2

Metagenomic programs used (see references in the preprint linked above)

Kaiju

Kraken-uniq

Centrifuge

Wochenende and Haybaler

Metaphlan

Further analysis scripts

R barplotting

Python Pandas scripts