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wwylab authored Oct 9, 2023
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Expand Up @@ -6,15 +6,15 @@ Please refer to our [preprint](link) for details of DeMixSC.
# Framework overview
DeMixSC offers accurate cell-type deconvolution for large bulk RNA-seq datasets through a two-tier procedure.

First, DeMixSC utilizes a specifically designed benchmark dataset to identify and adjust genes with high inter-platform discrepancies (Fig.A).
First, DeMixSC utilizes a specifically designed benchmark dataset to identify and adjust genes with high inter-platform discrepancies (Fig.1A).

Second, to deconvolve a large unmatched bulk RNA-seq dataset, DeMixSC aligns it with the benchmark dataset (Fig.B) and then employs a refined weighted non-negative least square (wNNLS) framework for deconvolution (Fig.C).
Second, to deconvolve a large unmatched bulk RNA-seq dataset, DeMixSC aligns it with the benchmark dataset (Fig.1B) and then employs a refined weighted non-negative least square (wNNLS) framework for deconvolution (Fig.1C).

Note: DeMixSC requires a matched tissue type between the small benchmark dataset and the large targeted cohort.

<figure>
<img src="./figures/framework.png" width="800px"/>
<figcaption>Rescource: Figure 2 from the DeMixSC manuscript.</figcaption>
<figcaption>Rescource: Figure 1, Workflow of DeMixSC ([Guo et al. 2023](link)).</figcaption>
</figure>

# Usage
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