# Classification

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There are different methods to automatically classify cell type based on biomarkers. There are two methods available in Connected Multiomics

* SCtype
* Garnett

### Cell Typing with ScType

ScType allows automated cell-type identification based on scRNA-seq data along with a comprehensive cell marker database as background information.

* Click the data node containing the non-normalized count matrix
* Click on **Classification** > **Single cell type** in the toolbox
* Select the marker database from the drop-down menu, the original full ScType database is provided by default
* Select categorical attributes to **Categorize by** (e.g. graph-based clusters)
* Optionally **Filter tissue types**
* Select the **SC Type algorithm** to use
* Click **Configure** to access and change any *Advanced options*
* Click **Finish** to run

A new *scType classification* task node will be produced. When complete, double-click the **Single cell type** node to open the results of the cell-type identification. For each cell, the tissue, sctype result, and typescore are reported.