semvec/pypi-packages huggingface dataset:
scTM 0.1.3
A toolbox for single cell topic models
License: MIT
Requires Python: >=3.8

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scTM: A pacakge for topic modelling in transcriptomics data
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.. image:: https://img.shields.io/pypi/v/sctm.svg
        :target: https://pypi.org/project/scTM


.. image:: https://readthedocs.org/projects/sctm/badge/?version=latest
        :target: https://JinmiaoChenLab.github.io/scTM/
        :alt: Documentation Status



scTM is a package for spatial transcriptomics for single cell that uses topic modelling, solved with stochastic variational infernce. The interesting
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
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- STAMP: A spatially-aware dimensional reduction designed for spatial data.

Minimal Installation
--------------------

.. code-block:: python

    pip install scTM

or

.. code-block:: python

    conda create --name sctm python=3.8
    git clone https://github.com/JinmiaoChenLab/scTM.git
    conda activate sctm
    cd scTM
    pip install .

Basic Usage
-----------
Check out our usage of STAMP in the documentation at https://jinmiaochenlab.github.io/scTM/notebooks/stamp/example1/

Credits
-------

This package was created with Cookiecutter_ and the `audreyr/cookiecutter-pypackage`_ project template.

.. _Cookiecutter: https://github.com/audreyr/cookiecutter
.. _`audreyr/cookiecutter-pypackage`: https://github.com/audreyr/cookiecutter-pypackage