tangram.md

Tangram

:::{note} This model is deprecated starting v1.5. :::

Tangram {cite:p}Biancalani21 (Python class {class}~scvi.external.Tangram) maps single-cell RNA-seq data to spatial data, permitting deconvolution of cell types in spatial data like Visium.

This is a reimplementation of Tangram, which can originally be found here.

Overview

Tangram learns a matrix $M$ with shape ($n_{sc} \times n_{sp}$), in which each row sums to 1. Thus, this matrix can be viewed as a map from single cells to the spatial observations.

-   {doc}`/tutorials/notebooks/spatial/tangram_scvi_tools`