The current working version is a qiime2-based implementation. It requires that you have installed qiime2 according to the installation instructions and have activated the environment. In addition to vanilla qiime2, you will also need to install RESCRIPt; these installation instructions will guide you through that process.


Sidle has been tested against qiime2-2020.11 and later; it may not function with earlier versions of qiime2.

One you have activated your qiime2 enviroment, sidle can be installed with the following commands.

conda install dask
conda install -c conda-forge -c bioconda -c qiime2 -c defaults xmltodict
pip install git+
pip install git+
qiime dev refresh-cache

You can test the installation by running


You should see a print out which includes sidle.

Now, you’re all ready to start using Sidle.