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To learn more about how to Flow run Cell Ranger - ATAC task in Flow, please refer to our online documentation.

The output of the count matrix then becomes the starting point for downstream analysis for scATAC-seq data in Flow (Figure 5). 

Filter features

A common task in bulk and single-cell RNA-Seq analysis is to filter the data to include only informative genes (features). Because there is no gold standard for what makes a gene informative or not and ideal gene filtering criteria depend on your experimental design and research question, Partek Flow has a wide variety of flexible filtering options. The Filter features step can also be performed before normalization. 

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