cami/camisim repository overview

⁠CAMISIM

CAMISIM is a software to model abundance distributions of microbial communities and to simulate corresponding shotgun metagenome datasets. It was mainly developed for the Critical Assessment of Metagenome Annotation (CAMI)⁠ challenge, but should be suitable for general use. Please don't hesitate to open a new issue⁠ if you run into problems or need help.

⁠Documentation

• User manual⁠
• Configuration File Options⁠
• File Formats⁠

⁠Citation

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

A part of CAMISIM's functionality was also described in the CAMI manuscript, thus you may also cite:

• Sczyrba*, Hofmann*, Belmann*, et al. (2017). Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software. Nature Methods, 14, 11:1063–1071. doi:10.1038/nmeth.4458⁠