TranspaceR is an R-package dedicated to process various spatial data to establish an atlas of Cellular Spatial Structures. This project focuses on two primary analyses:
- KNN-Based Clustering: We employ a K-Nearest Neighbors (KNN) approach to cluster cells based on their spatial transcriptomic profiles.
- Cell Annotation: Cell types are annotated using the Scimilarity tool, which documentation's can be found here.
TranspaceR can be installed from the source file :
devtools::install_local("Path/to/TranspaceR_1.0.0.tar.gz",dependencies = T)It can also be installed using devtools :
devtools::install_github("BOSTLAB/TranspaceR")For a typical example of analysis, check the markdown file located here.
For an example of multi-sample analysis, check here.