pymojitoo/README.md

In CostaLab/MOJITOO: MOJITOO: (M)ulti-m(O)dal (J)oint (I)ntegra(T)ion of c(O)mp(O)nents

MOJITOO

Mingbo Cheng1, Zhijian Li1, Ivan G. Costa1*

1Institute for Computational Genomics, Faculty of Medicine, RWTH Aachen University, Aachen, 52074 Germany

Installation

git clone https://github.com/CostaLab/MOJITOO.git
cd pymojitoo
pip install .

dummy example

## not for real, please use multimodal data instead
import mojitoo
import scanpy
import scanpy as sc
import episcanpy as epi
ds = sc.datasets
adata = ds.pbmc68k_reduced()
epi.tl.tfidf(adata)
epi.tl.lsi(adata)
mojitoo.mojitoo(adata, ["X_pca", "X_lsi"])
sc.pp.neighbors(adata, use_rep='X_mojitoo')
sc.pl.umap(adata, color='louvain')

References:

MOJITOO: a fast and universal method for integration of multimodal single cell data link

CostaLab/MOJITOO documentation built on Oct. 17, 2023, 12:06 a.m.