R package containing functions useful for stitching Visium capture areas. Related to https://github.com/LieberInstitute/LS_visiumStitched
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Updated
Jun 6, 2024 - R
R package containing functions useful for stitching Visium capture areas. Related to https://github.com/LieberInstitute/LS_visiumStitched
R-based Xenium Spatial Analysis Toolkit to assess gene expression gradients
Rmarkdown scripts for adult human postmortem SN & Cortex cell atlas project.
Scripts developed to work with 10x Genomics sequencing results
Single-Cell RNA-seq analysis workflow for 10x Genomics data
🧽 Estimate sequencing saturation for GEX, VDJ, and ADT data from the 10x Genomics platform.
Scripts for sincle cell multiome analysis
A Snakemake workflow for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits or in the MTX matrix file format powered by the R package Seurat.
Functions for handling RNA-seq files and formats as input and output for scrattch functions.
scpca-nf is the Nextflow workflow for processing Single-cell Pediatric Cancer Atlas Portal data
The following repository contains code for all scRNAseq analysis and visualization performed in the paper: Single cell resolution analysis of the human pancreatic ductal progenitor cell niche
Pipeline for SpatialTranscriptomics and 10X Visium data
Code for the spatialLIBD R/Bioconductor package and shiny app
Convert Seurat objects to 10x Genomics Loupe files.
Single (i) Cell R package (iCellR) is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRNA-seq, scVDJ-seq, scATAC-seq, CITE-Seq and Spatial Transcriptomics (ST)).
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