Starlitnightly / omicverse

A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
https://starlitnightly.github.io/omicverse/
GNU General Public License v3.0
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Maybe some QC plot function need add in this module #104

Closed zonzero closed 1 week ago

zonzero commented 2 weeks ago

Hello, I think it's a great work for beginner like me to try python scRNAseq analysis. But I not found some plot in qc parts. Such as sc.pl.pca_variance_ratio and violin plot for basic data shape. Therefore, I believe that these fundamental methods of generating charge maps should be incorporated into the module or automatically generated. Otherwise, compared to the analyses performed by Scanpy, it seems challenging to comprehend the basic characteristics of the samples, especially for a new, untreated sample.

zonzero commented 2 weeks ago

I'am sorry, I think I miss some tutorials.

Starlitnightly commented 1 week ago

This was an oversight on my part, OmicVerse does include this function, it's just that it's probably shown in another tutorial.

ov.utils.plot_pca_variance_ratio(adata)

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