Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey and dual-gene plot in high-resolution SVG/PNG format. It also performs differential gene expression analysis and provides a Command Line Interface (CLI) for advanced users to perform analysis using python and R.
Add short description and initial graph settings. “|” and “by” are delimiters for VIP to parse the initial settings. Please follow the same rule for your own h5ad files. Please ensure to use matching names (umap, cell_type) in your data set.
adata.obs['>Description'] = ['Human brain snRNAseq 46k cells (MS Nature 2019 Schirmer et al.); data - normalized, log transformed and scaled UMI; platform - 10X v2 chemistry | embedding by umap; color by cell_type']*adata.n_obs