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Overview

  • About SIMBA
  • Installation
  • API
  • Release notes
  • Citation

SIMBA primer

  • Basic concepts
  • Output

Tutorials

  • scRNA-seq analysis
  • scATAC-seq analysis
  • Multimodal analysis
  • Multimodal gene regulatory network
  • Batch correction (two batches)
  • Batch correction (multiple batches)
  • Multiomics integration
  • SIMBA on 1.3 million cells
SIMBA
  • Overview: module code

All modules for which code is available

  • anndata._io.h5ad
  • anndata._io.read
  • simba.datasets._datasets
  • simba.plotting._plot
  • simba.plotting._post_training
  • simba.preprocessing._general
  • simba.preprocessing._pca
  • simba.preprocessing._qc
  • simba.preprocessing._variable_genes
  • simba.readwrite
  • simba.tools._gene_scores
  • simba.tools._general
  • simba.tools._integration
  • simba.tools._pbg
  • simba.tools._post_training
  • simba.tools._umap

© Copyright 2023, Huidong Chen. Revision 374e5bf5.