SpaTalk 1.0-foss-2021b-R-4.2.0
A spatially resolved cell-cell communication inference method relying on the graph network and knowledge graph to model ligand-receptor-target signaling network between the spatially proximal cells, which were decomposed from the ST data through the non-negative linear model and spatial mapping between single-cell RNA-seq and ST data. SpaTalk is a reliable method that can help scientists uncover the spatially resolved cell-cell communications for either single-cell or spot-based ST data universally, providing new insights into the understanding of spatial cellular dynamics in tissues.Accessing SpaTalk 1.0-foss-2021b-R-4.2.0
To load the module for SpaTalk 1.0-foss-2021b-R-4.2.0 please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):
module load SpaTalk/1.0-foss-2021b-R-4.2.0
BEAR Apps Version
Extensions
- ggalluvial 0.12.3
- ggfun 0.0.6
- NNLM 0.4.3
- scatterpie 0.1.7
- SpaTalk 1.0
More Information
For more information visit the SpaTalk website.
Dependencies
This version of SpaTalk has a direct dependency on: foss/2021b R/4.2.0-foss-2021b R-bundle-Bioconductor/3.15-foss-2021b-R-4.2.0
Required By
This version of SpaTalk is a direct dependent of: BEAR-R-bio/2021b-foss-2021b-R-4.2.0
Last modified on 11th August 2022