GOsummaries basics

Figure 1 shows an example of plot generated with GOsummaries package. All the GOsummaries plots have more or less the same layout, however, the elements are adjusted corresponding to the underlying analysis. The plot is built of components (Fig 1A) that represent a gene list or a pair of gene lists as in Fig 1. Each component is composed of two parts the word cloud(s) (Fig 1E), representing the GO annotations of the gene lists, and a panel (Fig 1C) that displays the underlying data experimental data. In this case the panel shows the expression values of the corresponding genes. There are also slots for the component title (Fig 1B) and some additional information about the gene lists (Fig 1D). In the word clouds the sizes of the GO categories indicate the strength of enrichment, relative to the other results of the same query. To make global comparison of the strength of enrichment possible we use different shades of grey.