This repository contains all scripts, documents and information related to the Master's thesis "Simulation and dimension reduction of shotgun metagenome data" by Cassandra Hjortdahl.
The work was carried out at the Norwegian University of Life Sciences (NMBU) at the Faculty of Chemistry, Biotechnology and Food Science, and in collaboration with the CRCbiome group at the Cancer Registry of Norway. Supervisors: Professor Siv Kjølsrud Bøhn, Professor Trine Ballestad Rounge, and Einar Elvbakken Birkeland.
CAMISIM was developed by Fritz*, Hofmann*, et al. (2019).
If you use CAMISIM, please cite the publication at Microbiome:
Fritz*, Hofmann*, et al. (2019). CAMISIM: Simulating metagenomes and microbial communities. Microbiome, 2019, 7:17. doi:10.1186/s40168-019-0633-6
The CAMISIM GitHub page is available here
To ensure the security and privacy of the data involved in this project, all sensitive information has been removed from the scripts and other files in this repository. This includes, but is not limited to, sample IDs and complete paths.
To run the scripts contained in this repository, you must have authorized access to the project on the Tjenester for Sensitive Data (TSD) platform. TSD provides a secure environment for processing sensitive data, which is crucial for our research.