Data and Analysis Files Repository: Repurposing Large-Format Microarrays for Scalable Spatial Transcriptomics

Data and Analysis Files from "Repurposing Large-Format Microarrays for Scalable Spatial Transcriptomics"

ArraySeq_Method.zip contains the following folder and contents:

• STARSolo: All code and count matrix output from fastq spatial barcode demultiplexing. 
• Images: All resolution-downsampled H&E image scans from analyzed tissues
• Space_Ranger: All 10x Space Ranger output from Visium datasets generated in the paper. 
• Analysis: All scripts for analyzing and plotting Array-seq and Visium datasets generated in this paper. Also contains output h5ad files. 

ArraySeq_Barcode_generation_n12.rmd: The script used to generate the Array-seq probes with 12-mer spatial barcodes.