spared.plotting.plot_mean_std

spared.plotting.plot_mean_std(dataset: str, processed_adata: AnnData, raw_adata: AnnData, path: str) → None

Plot mean and std of all genes

This function plots a scatter of mean and standard deviation of genes present in raw_adata (black) and all the layers with non-zero mean in processed_adata. It is used to see the effect of filtering and processing in the genes. The plot is saved to the specified path.

Parameters:

• dataset – Name of the dataset

• processed_adata (ad.AnnData) – Processed and filtered data ready to use by the model.

• raw_adata (ad.AnnData) – Data loaded data from .h5ad file that is not filtered but has patch information.

• path (str) – Path to save the image.