omicverse-reproducibility¶

Reproducibility of results/figures from omicverse paper. OmicVerse is the fundamental package for multi omics included bulk ,single cell and spatial RNA-seq analysis with Python. For more information, please read our paper: OmicVerse: A single pipeline for exploring the entire transcriptome universe

A collection of processed data discussed in this manuscript have been deposited on figshare (https://doi.org/10.6084/m9.figshare.23165636).

A tutorial on the reproduction of the paper is available at https://Starlitnightly.github.io/omicverse-reproducibility/

Files¶

Figure_2,sfig2,sfig3,sfig4: dg_ACGAN.ipynb,dg_CGAN.ipynb,dg_bulktrajblend.ipynb,dg_metric_bulktrajblend.ipynb,hpc_ACGAN.ipynb,hpc_CGAN.ipynb,hpc_bulktrajblend.ipynb,hpc_metric_bulktrajblend.ipynb,metric1.ipynb and metric2.ipynb
Figure_3,sfig5,sfig6,:
Figure_4: ov_deg.ipynb and ov_wgcna.ipynb
Figure_5,sfig7: ov_scrna.ipynb and ov_scrna-epi.ipynb
Figure_6,sfig8: ov_glue_preprocessed.ipynb and ov_mofa.ipynb

Contact¶

Zehua Zeng (starlitnightly@163.com, or zehuazeng@xs.ustb.edu.cn)

Other¶

If you would like to sponsor the development of our project, you can go to the afdian website (https://afdian.net/a/starlitnightly) and sponsor us.

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