13 results found Sort:

saeyslab
nichenetr saeyslab
121
522
unknown
13
NicheNet: predict active ligand-target links between interacting cells
rna-seq ligand-target gene-expression ligand-receptor data-integration network-inference single-cell-omics single-cell-rna-seq cell-cell-communication intercellular-communication
Created 2018-02-05
495 commits to master branch, last one 6 months ago
zhanghao-njmu
SCP zhanghao-njmu
100
465
gpl-3.0
8
An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
scanpy seurat anndata scrna-seq shiny-app shinyapps scatac-seq shiny-apps single-cell scrna-pipeline seurat-objects single-cell-omics scrna-seq-analysis single-cell-rna-seq single-cell-analysis single-cell-atac-seq single-cell-genomics single-cell-pipeline single-cell-sequencing
Created 2022-03-30
308 commits to main branch, last one about a year ago
genecell
single-cell-papers-with-code genecell
71
281
unknown
12
Papers with code for single cell related papers
scrna-seq single-cell paper-with-code single-cell-omics scrna-seq-analysis single-cell-rna-seq reproducible-science single-cell-atac-seq reproducible-research
Created 2020-07-27
32 commits to master branch, last one about a year ago
dynverse
dyno dynverse
32
176
other
6
Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕
trajectory visualisation single-cell-omics trajectory-inference
Created 2018-05-08
111 commits to master branch, last one 5 years ago
prabhakarlab
Banksy prabhakarlab
12
98
other
5
BANKSY: spatial clustering
spatial-omics single-cell-omics clustering-algorithm
Created 2021-05-23
285 commits to devel branch, last one 21 days ago
neurogenomics
MAGMA_Celltyping neurogenomics
32
82
unknown
5
Find causal cell-types underlying complex trait genetics
gwas snps magma genomics single-cell single-cell-omics statistical-genetics
Created 2018-05-04
261 commits to master branch, last one 28 days ago
dynverse
dynverse dynverse
15
74
other
7
A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍
scrna-seq single-cell benchmarking single-cell-omics single-cell-rna-seq trajectory-inference-methods
Created 2017-10-02
295 commits to master branch, last one 3 years ago
dynverse
dyngen dynverse
6
74
other
2
Simulating single-cell data using gene regulatory networks 📠
single-cell benchmarking single-cell-omics single-cell-analysis
Created 2017-03-10
1,169 commits to master branch, last one 2 years ago
xmc811
Scillus xmc811
11
61
gpl-3.0
3
R Package for Single-Cell Dataset Processing and Visualization
rlang bioinformatics single-cell-omics data-visualization
Created 2019-08-22
192 commits to master branch, last one 3 years ago
statgen
popscle statgen
16
47
apache-2.0
8
A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and auxilary tools
rna-seq demultiplex single-cell-omics single-cell-rna-seq single-cell-sequencing
Created 2019-01-11
48 commits to master branch, last one 3 years ago
multitalk
awesome-cell-cell-communication multitalk
6
39
mit
2
Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
single-cell-omics transcriptomics-data cell-cell-interaction spatial-data-analysis cell-cell-communication
Created 2022-11-03
112 commits to main branch, last one 21 days ago
MICS-Lab
scyan MICS-Lab
1
34
bsd-3-clause
3
Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effect and can be used for debarcoding or population discovery.
cytometry deep-learning generative-model normalizing-flows single-cell-omics
Created 2022-07-20
488 commits to master branch, last one 4 months ago
HaojiaWu
CellScopes.jl HaojiaWu
3
34
mit
3
A Julia package for single cell and spatial data analysis
visium xenium cartana merfish seqfish starmap data-viz slideseq scrna-seq scatac-seq julia-package bioinformatics single-cell-omics spatial-transcriptomics
Created 2022-12-26
1,005 commits to main branch, last one 6 months ago