Fig. 1

Example of chromoMap plot constructed using various features of chromoMap including polyploidy (used as multi-track), feature-associated data visualization (scatter and bar plots), chromosome heatmaps, data filters (color-coded scatter and bars). Differential gene expression in a cohort of patients positive for COVID19 and healthy individuals (NCBI Gene Expression Omnibus id: GSE162835) [12]. Each track contains information for chromosome 1 (For a complete interactive plot containing all 23 chromosomes see Additional file 1). Each track from top to bottom describes: (1) number of differentially expressed genes (DEGs) (FDR < 0.05) (bars over the chromosome depictions) per genomic window (green boxes within the chromosome). Windows containing ≥ 5 DEGs are shown in yellow. (2) DEGs (FDR < 0.05) between healthy individuals and patients positive for COVID19 visualized as a scatterplot above the chromosome depiction (genes with logFC ≥ 2 or logFC ≤ −2 are highlighted in orange). Dots above the grey dashed line represent upregulated genes in COVID19 positive patients. Heatmap within chromosome depictions indicates the average LogFC value per window. (3–4) Normalized expression of differentially expressed genes (scatterplot) and of each genomic window containing DEG (green scale heatmap) in (3) patients with severe/critical outcomes and (4) asymptomatic/mild outcome patients. (5) logFC of DEGs between healthy individuals and patients positive for COVID19 visualized as scatter plot color-coded based on the metabolic pathway each DEG belongs to