Import Cell Clusters

The Import Cell Clusters tool can import clusters for each cell. The importer produces Cell Clusters (Image cell_clusters_16_n_p) that can be used to define groups of cells for use in many tools such as Differential Expression for Single Cell. Cell Clusters can also be visualized in a Dimensionality Reduction Plot.

Often the same file can be imported as either Cell Clusters or Cell Annotations. The principal advantage of Cell Clusters is that they can be edited within the Dimensionality Reduction Plot.

The importer can be found here:

        Import (Image Next_Folder_16_n_p) | Import Cell Clusters (Image import_cell_clusters_16_n_p).

The following options are available:

Image importclustersexample
Figure 2.4: An example of a file that could be imported with Import Cell Clusters. The file contains three different clusterings.

Image importedclusters
Figure 2.5: The result of importing the file shown in figure 2.4 using the option `Map clusters to QIAGEN Cell Ontology'. Note that all cell types have been translated to terms in the QIAGEN Cell Ontology. For example, `T cells' have been standardized to `T lymphocytes', and `alveolar epithelial cells' have been standardized to `pneumocytes'.