A toolbox for single cell topic models
Project description
scTM is a package for spatial transcriptomics for single cell that uses topic modelling, solved with stochastic variational infernce. The intresting part is with the formulation of topic models, we can get interpretable embedding which are useful for downstream analysis.
Currently available modules: STAMP
Free software: MIT license
Documentation: https://JinmiaoChenLab.github.io/scTM/.
Features
STAMP: A spatially-aware dimensional reduction designed for spatial data.
Minimal Installation
`` pip install scTM ``
or
`` conda create –name sctm python=3.8 git clone https://JinmiaoChenLab.github.io/scTM/ cd scTM pip install . ``
Basic Usage
To be added
Credits
This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
