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The Top 12 R Single Cell Transcriptomics Open Source Projects

Open source projects categorized as R Single Cell Transcriptomics
Categories > Single Cell
Categories > Transcriptomics
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
Pando ⭐ 88
Multiome GRN inference.
most recent commit 3 months ago
Singlecellhaystack ⭐ 68
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
most recent commit 3 months ago
Ewce ⭐ 46
Expression Weighted Celltype Enrichment. See the package website for up-to-date instructions on usage.
most recent commit 5 months ago
Celltalker ⭐ 41
Inference of cell-cell communication from single-cell RNAseq data
most recent commit 10 months ago
Scpa ⭐ 33
R package for pathway analysis in scRNA-seq data
most recent commit 6 months ago
Scasa ⭐ 12
SCASA: Single cell transcript quantification tool
most recent commit 5 months ago
Iasva ⭐ 8
Iteratively Adjusted Surrogate Variable Analysis
most recent commit 3 years ago
Trendcatcher ⭐ 7
TrendCatcher is an open source R-package that allows users to systematically analyze and visualize time course data. Please cite "Temporal transcriptomic analysis using TrendCatcher identifies early and persistent neutrophil activation in severe COVID-19" by Xinge Wang et al published in JCI Insight (2022) - https://insight.jci.org/articles/view/157255
most recent commit 3 months ago
Sclane ⭐ 6
Characterize gene dynamics over trajectories using GLMs, GEEs, & GLMMs.
most recent commit 4 months ago
Dturtle ⭐ 6
Perform differential transcript usage (DTU) analysis of bulk or single-cell RNA-seq data. See documentation at:
most recent commit 2 years ago
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