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The Top 23 Single Cell Scrna Seq Open Source Projects

Open source projects categorized as Single Cell Scrna Seq
Categories > Scrna Seq
Categories > Single Cell
Salmon ⭐ 661
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
most recent commit 8 months ago
Scrna Seq_notes ⭐ 478
A list of scRNA-seq analysis tools
most recent commit 4 months ago
Scrna Tools ⭐ 295
Table of software for the analysis of single-cell RNA-seq data.
most recent commit 17 days ago
Scarches ⭐ 294
Reference mapping for single-cell genomics
dependent packages 2total releases 28most recent commit 4 months agopypi scArches} Downloads
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
Scgen ⭐ 215
Single cell perturbation prediction
dependent packages 2total releases 9most recent commit 7 months agopypi scgen} Downloads
Celltypist ⭐ 202
A tool for semi-automatic cell type classification
dependent packages 1total releases 24most recent commit 6 months agopypi celltypist} Downloads
Single Cell Papers With Code ⭐ 193
Papers with code for single cell related papers
most recent commit 9 months ago
Pagoda2 ⭐ 191
R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
dependent packages 3total releases 9most recent commit 2 months ago
Stream ⭐ 163
STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data
most recent commit 2 years 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
Scdeepsort ⭐ 93
Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
most recent commit 10 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
Scevan ⭐ 65
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.
most recent commit 3 months ago
Vireo ⭐ 60
Demultiplexing pooled scRNA-seq data with or without genotype reference
total releases 21most recent commit 2 months ago
Dynverse ⭐ 58
A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍
most recent commit 3 years ago
Cardelino ⭐ 57
Clone identification from single-cell data
most recent commit a year ago
Multinichenetr ⭐ 56
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
most recent commit 5 months ago
Scperturb ⭐ 56
scPerturb: A resource and a python/R tool for single-cell perturbation data
total releases 5most recent commit 3 months ago
Cirrocumulus ⭐ 55
Bring your single-cell data to life
total releases 147most recent commit 5 months ago
Scfea ⭐ 47
single cell Flux Estimation Analysis (scFEA) Try the below web server!
most recent commit a year ago
Cell2cell ⭐ 44
User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
most recent commit 5 months ago
Cellhint ⭐ 44
A tool for semi-automatic cell type harmonization and integration
most recent commit 3 months ago
The 4 Most Depended On Single Cell Scrna Seq Open Source Projects
Pagoda2 ⭐ 191
R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
dependent packages 3total releases 9latest release December 12, 2021most recent commit 2 months ago
Scarches ⭐ 294
Reference mapping for single-cell genomics
dependent packages 2total releases 28latest release December 08, 2023most recent commit 4 months agopypi scArches} Downloads
Scgen ⭐ 215
Single cell perturbation prediction
dependent packages 2total releases 9latest release April 25, 2022most recent commit 7 months agopypi scgen} Downloads
Celltypist ⭐ 202
A tool for semi-automatic cell type classification
dependent packages 1total releases 24latest release November 01, 2023most recent commit 6 months agopypi celltypist} Downloads
The 10 Latest Releases In Single Cell Scrna Seq Open Source Projects
Scarches ⭐ 294
Reference mapping for single-cell genomics
dependent packages 2total releases 28latest release December 08, 2023most recent commit 4 months agopypi scArches} Downloads
Celltypist ⭐ 202
A tool for semi-automatic cell type classification
dependent packages 1total releases 24latest release November 01, 2023most recent commit 6 months agopypi celltypist} Downloads
Cirrocumulus ⭐ 55
Bring your single-cell data to life
total releases 147latest release September 29, 2023most recent commit 5 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
Irescue ⭐ 8
A tool to quantify transposable elements expression in scRNA-seq
total releases 5latest release March 13, 2023most recent commit a year ago
Northstar ⭐ 23
Single cell type annotation guided by cell atlases, with freedom to be queer
total releases 7latest release July 25, 2022most recent commit 2 years ago
Scgen ⭐ 215
Single cell perturbation prediction
dependent packages 2total releases 9latest release April 25, 2022most recent commit 7 months agopypi scgen} Downloads
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