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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)).

Titancna ⭐ 59

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

Convert Seurat objects to 10x Genomics Loupe files.

Pipeline for SpatialTranscriptomics and 10X Visium data

Cellrangerrkit ⭐ 14

Non-official Git repository for R package cellrangerRkit (currently not available elsewhere; I'm not affiliated with 10x)

Scpca Nf ⭐ 11

scpca-nf is the Nextflow workflow for processing Single-cell Pediatric Cancer Atlas Portal data

Pancreas_ductal_scrnaseq ⭐ 9

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

Scrattch.io ⭐ 7

Functions for handling RNA-seq files and formats as input and output for scrattch functions.

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