scMonitor/scMonitor.eng.vtt

WEBVTT

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In this video, I will present you

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the shinny application scMonitor, which is

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oriented to easily explore

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a previously processed seurat object.

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Firstly, you should select the file

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containing the seurat object.

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For now, the file format must be RDS.

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Depending on the object size and

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computer potency the loading

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will take more or less time.

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UMAP distribution that generates

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is the same that shows as default,

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usually clusters identified by seurat itself.

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We can group colors by any

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other variable that we have included in the

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metadata from the object specifying it in "GroupBy".

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Tipically, the sample origin or

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a manual annotation

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from the cell type.

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Distribution can also be divided by

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another variable selecting in "FacetBy".

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In this case, we are looking at

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the distribution of cell type

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by the sample origin.

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Another available visualization is to show expression

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for a group of genes separated by a white space

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over UMAP distribution.

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With the "Height" bar we can adjust

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the size in order to feel comfortable.

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Finally, we can create signatures in order to visualize

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their score from cells.

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One must indicate the signature name and

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on the box below specify the genes

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that are included. Once added, you can

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specify its name in the

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signatures box.