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Fig. 1 | BMC Research Notes

Fig. 1

From: Shiny-Seq: advanced guided transcriptome analysis

Fig. 1

Data pre-processing (a) box plots of samples (before and after normalization), PCA (2D and 3D) of samples (before, after normalization and after batch correction; interactive), sample correlation plot (before and after batch correction), source of variation plot (before and after batch correction; interactive); Exploratory analysis (b): box plot of single gene expression including statistics, p-value evaluation histogram, MA plot, module-condition relationship heat map (CENA), Venn diagram (interactive), volcano plot (interactive), fold change fold change plot (interactive), heatmap of 1000 most variable genes, own gene list, DEGA and CENA results; Downstream analysis (c): dot plots of GSEA results (interactive), visualization of KEGG pathways (DEGA genes or all present genes), TFBS plot

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