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