There are two statistical models according to which data has been fitted or reshaped in metagenomeSeq to perform differential analysis:
- fitFeature model: It is based on a zero-inflated Log-Normal mixture model. This approach is recommended by the author. Note this model currently only supports two-group comparisons.
- zero-inflated Gaussian fit (fitZig model): It is based on a zero-inflated Gaussian mixture model. It can be used when multiple groups are present for differential abundance testing.