SpatialDDLS

CRANSpatialDDLSMaRDI QIDQ158746

Deconvolution of Spatial Transcriptomics Data Based on Neural Networks

Fatima Sanchez-Cabo, Carlos Torroja, Diego Mañanes

Last update: 6 December 2023

Copyright license: GNU General Public License, version 3.0

Software version identifier: 0.1.0, 1.0.0

Description

Deconvolution of spatial transcriptomics data using deconvolution models based on deep neural networks and single-cell RNA-seq data. These models are able to make accurate estimates of the cell composition of spots in spatial transcriptomics datasets from the same context using the advances provided by deep learning and the meaningful information provided by single-cell RNA-Seq data. See Torroja and Sanchez-Cabo (2019) <doi:10.3389/fgene.2019.00978> and Mañanes et al. (2023) <doi:10.1101/2023.08.31.555677> to get an overview of the method and see some examples of its performance.

Cites work

• Digitaldlsorter: Deep-Learning on scRNA-Seq to Deconvolute Gene Expression Data
• SpatialDDLS: An R package to deconvolute spatial transcriptomics data using neural networks

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