Cell information vs cell information on dimension reduction

In this tab, users can visualise two cell informations (Regulon and module information) side-by-side on low-dimensional representions.

Gene expression vs gene expression on dimension reduction

In this tab, users can visualise two gene expressions side-by-side on low-dimensional representions.

Coexpression of two genes on reduced dimensions

In this tab, users can visualise the coexpression of two genes on low-dimensional representions.

Cell information / gene expression violin plot / box plot

In this tab, users can visualise the gene expression or continuous cell information (e.g. Number of UMIs / module / Regulon ) across groups of cells (e.g. DAP / clusters / cell type).

Proportion / cell numbers across different cell information

In this tab, users can visualise the composition of single cells based on one discrete cell information across another discrete cell information. Usage examples include the library or cellcycle composition across clusters.

Gene expression bubbleplot / heatmap

In this tab, users can visualise the gene expression patterns of multiple genes grouped by categorical cell information (e.g. library / cluster).
The normalised expression are averaged, log-transformed and then plotted.

Contact us

Technical contact: Huo, Qiang (E-mail: huoqiang138@163.com)
Corresponding contact: Song, Rentao (E-mail: rentaosong@cau.edu.cn); Ma, Zeyang (E-mail: zeyangma@cau.edu.cn)

Reference

Yuan and Huo et al. Decoding the gene regulatory network of endosperm differentiation in maize. Nature Communications, https://doi.org/10.1038/s41467-023-44369-7