Code for the spatialLIBD R/Bioconductor package and shiny app
Pipeline for SpatialTranscriptomics and 10X Visium data
R package using ICA based method for spatial transcriptomics analysis (Visium/Slide-seq/CosMX/MERSCOPE)
R package containing functions useful for stitching Visium capture areas. Related to the example human brain data described at http://research.libd.org/visiumStitched_brain/.
Code-only downstream spatial transcriptomics workflow for 10x Visium data in R and Seurat, packaged with expected results structure.
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.
An R/Seurat workflow for analyzing mouse-brain spatial transcriptomics data, including QC/normalization, spatially variable genes, and spatial visualization.
Workflows and code for spatial and meta-transcriptomic analysis of seronegative hepatitis, autoimmune hepatitis and donor liver samples.
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