![]() they can be particularly useful to present OTU read counts. Hence, with “Count lists” the figures presented in the diagram correspond to the sums of counts of all elements shared between lists. Finally, “Count lists” provide a count number for each element of a list. For “Intersection counts”, the lists are given a label (“A” or “B”) which is used to make the correspondence between the list and its count. Examples are presented in Table 2, where the different lists are “sample1” and “sample2”, the elements of the different lists are given in the fields “data”. The jvenn library accepts three different input formats : “Lists”, “Intersection counts” and “Count lists”. This section presents the main features of the jvenn library, including the kind of inputs it accepts, the different types of charts it displays, the types of the outputs and how it can be integrated in websites or directly used on our example web page. To solve this problem, the Edwards-Venn representation introduces new shapes providing a clearer view, shown in the example of Figure 1. Venn diagrams with up to four lists are easy to read and understand but Venn diagrams with more than four lists, are much harder to interpret. In proportional Venn diagrams, the size of a shape is proportional to the number of elements of the corresponding list or of the corresponding lists intersection. Shape overlaps contain the elements shared between lists or more often the corresponding counts. In a Venn diagram, each list is presented by a transparent shape. Venn diagrams are a common visualization chart, which allows to spot shared and unshared identifiers providing an insight on lists similarities. The analysis of these data often produces biological identifier lists, including gene names or OTU (Operational Taxonomic Unit), obtained from different methods (for differential analysis) or from different experimental conditions. High-throughput biology has led to an increasing number of data, with more and more complex experimental designs. The library package, which comes with full documentation and an example, is freely available at. Jvenn is an open source component for web environments helping scientists to analyze their data. Finally, jvenn can easily be embeded in a web page, allowing to have dynamic Venn diagrams. User interactions can be controlled and customized. It handles up to six input lists and presents results using classical or Edwards-Venn layouts. It processes lists and produces Venn diagrams. Alternative layouts and dynamic display features can improve its use and its readability. However, when the number of input lists exceeds four, the diagram becomes difficult to read. They thus allow the comparison between different experimental conditions or between different methods. ![]() In biology, they are widely used to show the differences between gene lists originating from different differential analyses, for instance. Venn diagrams are commonly used to display list comparison. ![]()
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