Cell Type Deconvolution

Estimate cell type proportions in bulk samples using a single-cell dataset.

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Deconvolution can be run with MuSiC (multi-sample only) or DWLS.

To run deconvolution, select a bulk dataset and click the cell-type deconvolution toggle:

Next select a reference single-cell dataset and, optionally, clusters that you want to exclude:

Click Submit cell-type deconvolution to begin.

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Non-human reference single-cell datasets are first mapped to human homologs.

When complete, you will see a plot of the estimated proportion of each cell-type in each bulk sample, summarized by bulk sample groups:

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If a comparison group is specified, FDR values for the comparison are shown in the plot.

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You can download the deconvolution results by clicking the download plot data button in the top right (see image above).