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scrna-seq

Here are 171 public repositories matching this topic...

scRNA-seq_notes

mdozmorov / scRNA-seq_notes

A list of scRNA-seq analysis tools

scrna-seq single-cell

Updated Nov 25, 2025
R

immunogenomics / harmony

Fast, sensitive and accurate integration of single-cell data with Harmony

algorithm r scrna-seq data-integration

Updated Oct 10, 2025
R

zhanghao-njmu / SCP

An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.

scrna-seq shiny-apps single-cell shinyapps single-cell-genomics single-cell-rna-seq single-cell-analysis single-cell-atac-seq seurat single-cell-omics scrna-seq-analysis single-cell-sequencing shiny-app scanpy scatac-seq anndata scrna-pipeline seurat-objects single-cell-pipeline

Updated Nov 28, 2025
R

scRNAtoolVis

junjunlab / scRNAtoolVis

Useful functions to make your scRNA-seq plot more cool!

visualization scrna-seq elegant yyds

Updated Dec 15, 2025
R

scRNA-tools / scRNA-tools

Table of software for the analysis of single-cell RNA-seq data.

rna-seq database tools software scrna-seq single-cell single-cell-rna-seq

Updated Dec 16, 2025
R

samuel-marsh / scCustomize

R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.

visualization ggplot2 customization scrna-seq single-cell single-cell-genomics single-cell-rna-seq seurat

Updated Dec 12, 2025
R

splatter

Oshlack / splatter

Simple simulation of single-cell RNA sequencing data

bioinformatics simulation bioconductor scrna-seq

Updated Dec 15, 2025
R

kharchenkolab / conos

R package for the joint analysis of multiple single-cell RNA-seq datasets

scrna-seq single-cell-rna-seq batch-correction

Updated Feb 26, 2024
R

theislab / zellkonverter

Conversion between scRNA-seq objects

r conversion bioconductor scrna-seq

Updated Dec 15, 2025
R

PaulingLiu / ROGUE

Assessing the purity of single cell population

clustering scrna-seq quantification purity

Updated Jun 3, 2022
R

rezakj / iCellR

iCellR is an interactive R package designed to facilitate the analysis and visualization of high-throughput single-cell sequencing data. It supports a variety of single-cell technologies, including scRNA-seq, scVDJ-seq, scATAC-seq, CITE-Seq, and Spatial Transcriptomics (ST).

clustering dropout batch-normalization imputation scrna-seq diffusion-maps clustering-algorithm 3d umap normalization 10xgenomics cell-type-classification intractive-graph cite-seq singel-cell-sequencing pseudotime scvdj-seq icellr

Updated Nov 10, 2025
R

catavallejos / BASiCS

BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/packages/BASiCS/ for the official release version

r rcpp gene-expression scrna-seq bayesian single-cell rcpparmadillo bioconductor-package

Updated Sep 17, 2025
R

dynverse / dynverse

A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍

benchmarking scrna-seq single-cell single-cell-rna-seq single-cell-omics trajectory-inference-methods

Updated May 20, 2021
R

KlugerLab / ALRA

Imputation method for scRNA-seq based on low-rank approximation

dropout imputation scrna-seq svd matrix-completion

Updated Dec 14, 2023
R

WXlab-NJMU / scrna-recom

collected resource for scRNA-seq analysis

scrna-seq

Updated Jul 19, 2023
R

PaulingLiu / scibet

A portable and fast single cell type identifier

supervised-learning classification scrna-seq

Updated May 12, 2021
R

genecell / COSGR

Accurate and fast cell marker gene identification with COSG

scrna-seq marker-genes spatial-transcriptomics scatac-seq

Updated Dec 24, 2022
R

single-cell-genetics / cardelino

Clone identification from single-cell data

scrna-seq single-cell somatic-mutations gibbs-sampling clonal-clustering

Updated Nov 10, 2022
R

Danko-Lab / TED

a fully Bayesian approach to deconvolve tumor microenvironment

scrna-seq deconvolution bulk-rna-seq tumor-cells stromal-cells expression-profile tumor-expression

Updated Jun 20, 2022
R

phipsonlab / speckle

R package for analysing single cell data

r statistics scrna-seq proportions

Updated Dec 8, 2022
R

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