Gating tools are available at the top of SeqGeq’s Graph Window which can be opened by double-clicking on any population within the workspace. Within the resulting display, users will be able to search the parameters (genes / antibodies / categoricals / derived parameters) available within their data set. This search function is enabled by an x-wing and y-wing for each axis within the Graph Window:
Gating is a fundamental feature within SeqGeq with which many different workflows are built. Gates can be developed hierarchically such that each new gate is built upon a foundation of other gates created upstream. Often this gating tree leads to a complex and nuanced data analysis leading to important research and entirely novel discovery.
Gating in the Cell View of SeqGeq’s Graph Window filters cells into subpopulations. Where parameters are available from upstream data collection and have been merged with the transcriptomics (gene expression matrix), such as flow cytometry or imaging cytometry, these gates can be particularly useful:
Parameters available for gating in Cell View will depend on the parameters present in a given expression matrix loaded there. Parameters combined into Genesets will also perform as parameters themselves, whose values rely on a summary statistic (such as ‘Median’) of the genes within that Geneset:
Note: All Genes are displayed in the Gene View by default, but users can select the Geneset to view there within the top left-hand corner of that Graph Window.
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