Fig. 2.

Overview of DiCoExpress workflow. DiCoExpress is composed of seven functions written in R programming language and available in the directory Sources. After loading the input files with the (1) Load_Data_Files function, a data quality control is done with the (2) Quality_Control function. Differential expression analysis using generalized linear models is performed by using the (3) GLM_Contrasts and (4) DiffAnalysis_edgeR functions. The union or intersection lists of differentially expressed genes are generated by the (5) Venn_Intersection_Union function. A co-expression analysis is performed on these lists by the (6) Coexpression_coseq function. Finally, the functional characterisation of lists of genes is tested by using the (7) Enrichment function