ssam 1.1.2

SSAM

SSAM (Spot-based Spatial cell-type Analysis by Multidimensional mRNA density estimation)

This repository contains the ongoing development of SSAM, including bugfixes, maintained by the Computational Omics Laboratory at Pusan National University (https://pnucolab.com).

If you are looking for the published version in 2021, please refer to https://github.com/HiDiHlabs/ssam.

Prerequisites

Currently SSAM was only tested with Python 3 in Linux environment. For details, please follow the instructions here: https://ssam.readthedocs.io/en/release/tldr.html#installation

Install

https://ssam.readthedocs.io/en/release/tldr.html#installation

Documentation

https://ssam.readthedocs.io/

Citations

Jeongbin Park, Wonyl Choi, Sebastian Tiesmeyer, Brian Long, Lars E. Borm, Emma Garren, Thuc Nghi Nguyen, Bosiljka Tasic, Simone Codeluppi, Tobias Graf, Matthias Schlesner, Oliver Stegle, Roland Eils & Naveed Ishaque. "Cell segmentation-free inference of cell types from in situ transcriptomics data. <https://www.nature.com/articles/s41467-021-23807-4>_" Nature Communications 12, 3545 (2021).

License

Copyright (C) 2018 Jeongbin Park and Wonyl Choi

This program is free software: you can redistribute it and/or modify it under the terms of the GNU Affero General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Affero General Public License for more details.

You should have received a copy of the GNU Affero General Public License along with this program. If not, see https://www.gnu.org/licenses/.