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The ordering is given by the dendrogram which is displayed on the side of the heatmap.
Therefore, we clustered the modules into seven distinct groups, as depicted by the dendrogram at the top in supplementary Figure S4.
This is illustrated by the dendrogram in figure 1.
As reflected by the dendrogram, the samples displayed heterogeneous expression profiles (Supplementary Figures S1A and B).
This grouping pattern corresponds with that of clustering analysis as shown by the dendrogram.
After performing hierarchical clustering four major clusters were identified by the dendrogram (Fig. 6b).
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Genes and arrays were hierarchically clustered using distances calculated from their Pearson and Spearman correlation as indicated by the dendrograms on the left and top of the heatmap, respectively.
Based on the SSR data, a phylogenetic tree of the core collection was drawn (see Additional file 4).> A few core collection accessions were highly distinct from the others, as shown by the dendrograms of phenotypic and genotypic diversity.
Then the community structure is acquired by cutting the dendrogram at the levels corresponding to the maximum modularity.
By cutting the dendrogram in Figure 5 at various linkage costs we are able to extract clusters of the desired granularity.
The shown k-mers were chosen by dividing the dendrogram into branches and identifying the 3- or 4-mer for which k-mer scores (yellow-black heatmap; see Methods) were most significantly elevated among motifs within a given branch.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com