Awesome Open Source
Search
Programming Languages
Languages
All Categories
Categories
About

The Top 23 Single Cell Analysis Open Source Projects

Open source projects categorized as Single Cell Analysis
Categories > Single Cell Analysis
Cellchat ⭐ 548
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
most recent commit 6 months ago
Seurat Wrappers ⭐ 268
Community-provided extensions to Seurat
most recent commit 3 months 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
Snapatac ⭐ 227
Analysis Pipeline for Single Cell ATAC-seq
most recent commit 2 years ago
Pycomplexheatmap ⭐ 182
PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)
total releases 37most recent commit 5 months ago
Numbat ⭐ 122
Haplotype-aware CNV analysis from single-cell RNA-seq
total releases 7most recent commit 6 months ago
Harmonypy ⭐ 116
🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
dependent packages 14total releases 8most recent commit a year agopypi harmonypy} Downloads
Dynmethods ⭐ 107
A collection of 50+ trajectory inference methods within a common interface 📥📤
most recent commit 4 months ago
Swne ⭐ 100
Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets
most recent commit 9 months ago
Too Many Cells ⭐ 95
Cluster single cells and analyze cell clade relationships with colorful visualizations.
total releases 30most recent commit 5 months ago
Honeybadger ⭐ 94
HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
most recent commit 3 years ago
Dictys ⭐ 86
Context specific and dynamic gene regulatory network reconstruction and analysis
total releases 1most recent commit 5 months ago
Cellchat ⭐ 76
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
most recent commit 3 months ago
Celescope ⭐ 73
Single Cell Analysis Pipelines
total releases 59most recent commit 4 months ago
Scavenge ⭐ 60
SCAVENGE is a method to optimize the inference of functional and genetic associations to specific cells at single-cell resolution.
most recent commit a year ago
Mnnpy ⭐ 54
An implementation of MNN (Mutual Nearest Neighbors) correct in python.
dependent packages 2total releases 14most recent commit a year agopypi mnnpy} Downloads
Dyngen ⭐ 52
Simulating single-cell data using gene regulatory networks 📠
total releases 7most recent commit 2 years ago
Slat ⭐ 52
Spatial-Linked Alignment Tool
total releases 2most recent commit 4 months ago
Nebulosa ⭐ 50
R package to visualize gene expression data based on weighted kernel density estimation
most recent commit a year ago
Scimap ⭐ 46
Spatial Single-Cell Analysis Toolkit
total releases 246most recent commit 4 months ago
Scissor ⭐ 45
Scissor package
most recent commit 2 years ago
Randomly ⭐ 33
A Library for Denoising Single-Cell Data with Random Matrix Theory
total releases 1most recent commit 8 months ago
The 2 Most Depended On Single Cell Analysis Open Source Projects
Harmonypy ⭐ 116
🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
dependent packages 14total releases 8latest release November 23, 2022most recent commit a year agopypi harmonypy} Downloads
Mnnpy ⭐ 54
An implementation of MNN (Mutual Nearest Neighbors) correct in python.
dependent packages 2total releases 14latest release February 25, 2019most recent commit a year agopypi mnnpy} Downloads
The 10 Latest Releases In Single Cell Analysis Open Source Projects
Pycomplexheatmap ⭐ 182
PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)
total releases 37latest release November 30, 2023most recent commit 5 months ago
Celescope ⭐ 73
Single Cell Analysis Pipelines
total releases 59latest release November 16, 2023most recent commit 4 months ago
Discbio ⭐ 9
A user-friendly R pipeline for biomarker discovery in single-cell transcriptomics
total releases 6latest release November 06, 2023most recent commit 6 months ago
Scimap ⭐ 46
Spatial Single-Cell Analysis Toolkit
total releases 246latest release October 18, 2023most recent commit 4 months ago
Dictys ⭐ 86
Context specific and dynamic gene regulatory network reconstruction and analysis
total releases 1latest release August 18, 2023most recent commit 5 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
Slat ⭐ 52
Spatial-Linked Alignment Tool
total releases 2latest release April 17, 2023most recent commit 4 months ago
Transmorph ⭐ 10
Computational framework for dataset integration
total releases 20latest release November 25, 2022most recent commit 9 months ago
Harmonypy ⭐ 116
🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
dependent packages 14total releases 8latest release November 23, 2022most recent commit a year agopypi harmonypy} Downloads
Dyngen ⭐ 52
Simulating single-cell data using gene regulatory networks 📠
total releases 7latest release October 12, 2022most recent commit 2 years ago
Categories
Privacy | About | Terms | Follow Us On Twitter

Downloads, Dependent Repos, Dependent Packages, Total Releases, Latest Releases data powered by Libraries.io.

Copyright 2018-2024 Awesome Open Source.  All rights reserved.