34 results found Sort:

154
668
gpl-3.0
14
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
This repository has been archived (exclude archived)
Created 2020-04-27
270 commits to master branch, last one about a year ago
97
439
gpl-3.0
8
An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
Created 2022-03-30
308 commits to main branch, last one about a year ago
55
347
gpl-3.0
2
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
Created 2023-11-05
112 commits to main branch, last one 2 months ago
Community-provided extensions to Seurat
Created 2019-04-24
391 commits to master branch, last one 2 months ago
66
315
apache-2.0
14
🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
Created 2019-02-26
683 commits to master branch, last one 11 months ago
129
311
gpl-3.0
14
Analysis Pipeline for Single Cell ATAC-seq
Created 2019-02-19
228 commits to master branch, last one 2 years ago
PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)
Created 2022-05-05
479 commits to main branch, last one about a month ago
22
212
gpl-3.0
6
🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
Created 2019-12-19
72 commits to master branch, last one 7 months ago
35
206
gpl-3.0
3
Scissor package
Created 2020-04-11
79 commits to master branch, last one 3 years ago
Haplotype-aware CNV analysis from single-cell RNA-seq
Created 2021-05-25
961 commits to main branch, last one 2 months ago
Tutorial for scRNA-seq data analysis beginners using R
Created 2020-04-19
37 commits to master branch, last one 10 months ago
16
138
gpl-3.0
1
scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy and efficient way.
Created 2024-09-03
56 commits to master branch, last one 7 days ago
26
123
other
10
A collection of 50+ trajectory inference methods within a common interface 📥📤
Created 2017-11-14
1,315 commits to master branch, last one about a year ago
14
113
agpl-3.0
5
Context specific and dynamic gene regulatory network reconstruction and analysis
Created 2022-07-01
91 commits to master branch, last one 7 months ago
Cluster single cells and analyze cell clade relationships with colorful visualizations.
Created 2019-01-10
395 commits to master branch, last one 3 months ago
19
105
bsd-3-clause
5
Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets
Created 2018-01-03
270 commits to master branch, last one about a year ago
R package to visualize gene expression data based on weighted kernel density estimation
Created 2020-07-12
120 commits to master branch, last one 11 months ago
HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
Created 2017-02-24
106 commits to master branch, last one 3 years ago
Single Cell Analysis Pipelines
Created 2020-07-29
1,809 commits to master branch, last one 6 days ago
Spatial Single-Cell Analysis Toolkit
Created 2020-06-09
890 commits to master branch, last one 23 days ago
8
82
mit
2
Spatial-Linked Alignment Tool
Created 2022-10-25
27 commits to main branch, last one about a month ago
SCAVENGE is a method to optimize the inference of functional and genetic associations to specific cells at single-cell resolution.
Created 2022-01-09
40 commits to main branch, last one 2 years ago
32
73
bsd-3-clause
6
An implementation of MNN (Mutual Nearest Neighbors) correct in python.
Created 2018-04-19
100 commits to master branch, last one 2 years ago
6
72
other
3
Simulating single-cell data using gene regulatory networks 📠
Created 2017-03-10
1,169 commits to master branch, last one 2 years ago
Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
Created 2022-04-24
11 commits to main branch, last one 10 months ago
9
51
gpl-3.0
3
Deep learning-based tissue compositions and cell-type-specific gene expression analysis with tissue-adaptive autoencoder (TAPE)
Created 2021-07-15
108 commits to main branch, last one about a year ago
10
48
other
6
ChatCell: Facilitating Single-Cell Analysis with Natural Language
Created 2023-12-19
170 commits to main branch, last one 12 months ago
a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challenge of accurately segmenting individual cells in complex imagin...
Created 2024-08-05
386 commits to main branch, last one 22 days ago
ClusterMap for multi-scale clustering analysis of spatial gene expression
Created 2021-09-29
76 commits to main branch, last one 7 months ago
8
41
bsd-3-clause
1
Accurate and fast cell marker gene identification with COSG
Created 2021-04-13
21 commits to main branch, last one about a year ago