A pipeline for droplet-based single-cell RNA-seq and spot-based spatial transcriptomics data secondary analysis implemented in the drake Make-like pipeline toolkit for the R language.

Spatial and single-cell Transcriptomics Integration Tool for CHaracterization (STITCH)

Convert your STDeconvolve-generated and EnrichR-decoded topics into Seurat spatial clustering information via AUCell

This repository provides an R-based pipeline for analyzing spatial RNA-seq data using Seurat, STDeconvolve, and Giotto. Designed to process and analyze spatial transcriptomics data through a sequence of well-defined steps, enabling in-depth exploration and interpretation of spatially resolved gene expression profiles.