Fig. 6: “filterMarker” module’s capacity to refine Seurat’s output marker genes. | Communications Biology

Fig. 6: “filterMarker” module’s capacity to refine Seurat’s output marker genes.

From: starTracer is an accelerated approach for precise marker gene identification in single-cell RNA-Seq analysis

Fig. 6

A–C Relative specificity level of each cluster from the human prefrontal cortex, human left heart ventricle and mouse kidney sample, which is measured by fold-\({T}_{i}\). The top 5 marker genes are included in the test. For each cluster, fold-\({T}_{i}\) is measured by the quotient of the \({T}_{i}\) of the genes derived by “starTracer” and the \({{{\rm{mean}}}}\) \(\left({T}_{i}\right)\) of the genes derived by “FindAllMarkers”. The fold-\({T}_{i}\) of genes derived by “FindAllMarkers” gives to an average value of 1 marked by the dash line. D Bubble plot of the marker genes identified by “FindAllMarkers”. Genes are arranged by the value of avg_log2FC. Dash line indicates the genes identified as marker genes in the inhibitory neurons, which did not show a high specificity level. E Bubble plot of the marker genes identified by “filterMarker”. Genes are arranged by the value of MI. Dash line indicates the genes identified as marker genes in the inhibitory neurons, which have a high increase in specificity.

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