visium topic

Spatial alignment of single cell transcriptomic data.

broadinstitute

ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.

jfnavarro

Spatial Transcriptomics Dashboard

ismms-himc

Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.

nf-core

Spatial Transcriptomics human DLPFC pilot study part of the spatialLIBD project

LieberInstitute

Code for the spatialLIBD R/Bioconductor package and shiny app

LieberInstitute

A Julia package for single cell and spatial data analysis

HaojiaWu

Pipeline for SpatialTranscriptomics and 10X Visium data

lima1

spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples

LieberInstitute

Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spatial and in situ analysis of FFPE tissue"

10XGenomics