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Fig. 5 | BMC Bioinformatics

Fig. 5

From: SPEAQeasy: a scalable pipeline for expression analysis and quantification for R/bioconductor-powered RNA-seq analyses

Fig. 5

Example analysis results from applying SPEAQeasy to a subset of the BipSeq PsychENCODE dataset. a Heatmap of the spearman correlation across samples using variant information derived from the RNA-seq data produced by SPEAQeasy. Off-diagonal high correlation values indicate potential sample swaps. b Top two principal components (PCs) derived from the gene expression counts produced by SPEAQeasy colored by diagnosis. c Boxplots of the normalized log2 expression for the top differentially expressed between controls and bipolar disorder affected individuals using a subset of the BipSeq PsychENCODE data processed using SPEAQeasy. d Heatmap of the top differentially expressed genes with annotations for the brain region (amygdala or sACC), sex (male or female) and diagnosis (bipolar or control). See http://research.libd.org/SPEAQeasy-example/ for the full example analysis

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BMC Bioinformatics

ISSN: 1471-2105

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