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Fig. 2 | Genome Biology

Fig. 2

From: A benchmark for RNA-seq deconvolution analysis under dynamic testing environments

Fig. 2

Evaluation results of Sim1_simModel and noise structure comparisons between real and simulated data. a Heatmap of the summarized evaluation results based on the Pearson’s correlation coefficients and b rankings of the tested deconvolution methods in the Sim1_simModel. In each heatmap, row indexes refer to the tested methods and column indexes refer to the simulation models (negative binomial, log-normal, and normal). c, d Mean-variance plots of c real and d simulated data. e, f Sample-sample scatter plots of e real and f simulated data. r, Spearman’s correlation coefficient; d, Euclidean distance. g, h Density plots of CV (coefficient of variation) of g real and d simulated data. Real data are derived from GSE113590 and GSE60424 (Additional file 1: Figures S6 and S7 contain detailed variance analysis results for each dataset). All simulated data in Fig. 2 are based on simulations derived from GSE51984 with the P6 noise level. Results in a and b are in the tpm unit; results in ch are in count unit

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