Regulatory network-based imputation of dropouts in single-cell RNA sequencing data
Fig 2
Characterization of the genes best predicted by Network (blue), DrImpute (green), kNN-smoothing (pink), SCRABBLE (bulk and single cell data as reference; purple) and SAVER (yellow) in the Lung Atlas 10X dataset.
A) Determination of the top best performing methods for each gene. Methods performing best and close to the best method (correlation not smaller than 0.1 –best method) were selected as top performers. Genes for which all methods were top performers were included in the background but not in the foreground. B) Distribution of missing values per gene, average expression levels and variance of the genes for which a given method is one of the top performers, compared against all tested genes (background). Average gene expression is shown as log2-transformed normalized expression. Too few genes were best predicted by scImpute, so no distributions were drawn for this method.