omicverse 1.5.8

v1.5.8

on Python PyPI

pp Module

• Added score_genes_cell_cycle function to calculate the cell cycle

bulk Module

• Fixed dds.plot_volcano text plot error when the version of adjustText larger than 0.9

single Module

• Optimised MetaCell.load model loading logic
• Fixed an error when loading the model usng MetaCell.load
• Added tutorials of Metacells

pl Module

Add pl as a unified drawing prefix for the next release, to replace the drawing functionality in the original utils, while retaining the drawing in the original utils.

• Added embedding to plot the embedding of scRNA-seq using ov.pl.embedding
• Added optim_palette to provide a spatially constrained approach that generates discriminate color assignments for visualizing single-cell spatial data in various scenarios
• Added cellproportion to plot the proportion of stack bar of scRNA-seq
• Added embedding_celltype to plot the figures both celltype proportion and embedding
• Added ConvexHull to plot the ConvexHull around the target cells
• Added embedding_adjust to adjust the text of celltype legend in embedding
• Added embedding_density to plot the category density in the cells
• Added bardotplot to plot the bardotplot between different groups.
• Added add_palue to plot the p-threshold between different groups.
• Added embedding_multi to support the mudata object
• Added purple_color to visualize the purple palette.
• Added venn to plot the venn from set 2 to set 4
• Added boxplot to visualize the boxdotplot
• Added volcano to visualzize the result of differential expressed genes