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The Top 23 R Single Cell Open Source Projects

Open source projects categorized as R Single Cell
Scrna Seq_notes ⭐ 478
A list of scRNA-seq analysis tools
most recent commit 4 months ago
Liger ⭐ 360
R package for integrating and analyzing multiple single-cell datasets
total releases 1most recent commit 21 days ago
Immunarch ⭐ 256
🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
most recent commit 8 months ago
Scp ⭐ 253
An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
most recent commit 4 months ago
Zumis ⭐ 232
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
most recent commit a year ago
Youtubetutorials ⭐ 180
most recent commit 4 months ago
Sccatch ⭐ 171
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
total releases 5most recent commit a year ago
Scde ⭐ 163
R package for analyzing single-cell RNA-seq data
most recent commit a year ago
Dittoseq ⭐ 153
Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
most recent commit 5 months ago
Sccustomize ⭐ 142
R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
total releases 5most recent commit 3 months ago
Tidyseurat ⭐ 131
Seurat meets tidyverse. The best of both worlds.
total releases 14most recent commit 3 months ago
Numbat ⭐ 122
Haplotype-aware CNV analysis from single-cell RNA-seq
total releases 7most recent commit 6 months ago
Scrna.seq.datasets ⭐ 121
Collection of public scRNA-Seq datasets used by our group
most recent commit 3 years ago
Scdblfinder ⭐ 118
Methods for detecting doublets in single-cell sequencing data
most recent commit 3 months ago
Ecotyper ⭐ 118
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
most recent commit 7 months ago
Scpubr ⭐ 117
Generate high quality, publication ready visualizations for single cell transcriptomics data.
total releases 11most recent commit 3 months ago
Powsimr ⭐ 102
Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially expressed genes. PowsimR is a flexible tool to simulate and evaluate differential expression from bulk and especially single-cell RNA-seq data making it suitable for a priori and posterior power analyses.
most recent commit 9 months ago
Seurat Data ⭐ 101
Dataset distribution for Seurat
most recent commit 6 months ago
Scatac Benchmarking ⭐ 92
Benchmarking computational single cell ATAC-seq methods
most recent commit 3 years ago
Mgatk ⭐ 89
mgatk: mitochondrial genome analysis toolkit
total releases 20most recent commit 3 months ago
Pando ⭐ 88
Multiome GRN inference.
most recent commit 4 months ago
Basics ⭐ 81
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
most recent commit 4 months ago
Scgate ⭐ 79
marker-based purification of cell types from single-cell RNA-seq datasets
total releases 2most recent commit 3 months ago
The 10 Latest Releases In R Single Cell Open Source Projects
Tidyseurat ⭐ 131
Seurat meets tidyverse. The best of both worlds.
total releases 14latest release November 28, 2023most recent commit 3 months ago
Scgate ⭐ 79
marker-based purification of cell types from single-cell RNA-seq datasets
total releases 2latest release November 06, 2023most recent commit 3 months ago
Scpubr ⭐ 117
Generate high quality, publication ready visualizations for single cell transcriptomics data.
total releases 11latest release October 11, 2023most recent commit 3 months ago
Scperturb ⭐ 56
scPerturb: A resource and a python/R tool for single-cell perturbation data
total releases 5latest release September 25, 2023most recent commit 3 months ago
Numbat ⭐ 122
Haplotype-aware CNV analysis from single-cell RNA-seq
total releases 7latest release June 17, 2023most recent commit 6 months ago
Sccatch ⭐ 171
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
total releases 5latest release April 23, 2023most recent commit a year ago
Mgatk ⭐ 89
mgatk: mitochondrial genome analysis toolkit
total releases 20latest release January 15, 2023most recent commit 3 months ago
Scistreer ⭐ 5
R/Rcpp implementation of the ScisTree algorithm
total releases 2latest release November 25, 2022most recent commit 10 months ago
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