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awesome-cell-cell-communication

Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

beautiful-visualization-with-python

python数据可视化之美

beautiful-visualization-with-r

《R语言数据可视化之美》配套代码

ccl-cgps-1

CCL-cGPS: a clinical genomics-guided prioritizing strategy enables accurately selecting proper cancer cell lines for biomedical research

cellassign

Automated, probabilistic assignment of cell types in scRNA-seq data

cellchat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

cellphonedb

celltalkdb

A manually curated database of literature-supported ligand-receptor interactions in human and mouse

clash_for_windows_pkg

A Windows/macOS GUI based on Clash

deepsort

Reference-free Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network

garnett

Automated cell type classification

giotto

Single-cell spatial analysis toolbox

github-readme-stats

:zap: Dynamically generated stats for your github readmes

listen1_desktop

one for all free music in china (Windows, Mac, Linux desktop)

lx-music-desktop

一个基于 electron 的音乐软件

mirtalk

Extracellular vesicle-derived miRNA-mediated cell-cell communication inference for single-cell transcriptomic data

mouselr-atlas

A single-cell spatial-temporal transcriptomic atlas of normal and fibrotic liver regeneration

multinichenetr

multitalk

nichenetr

NicheNet: predict active ligand-target links between interacting cells

ppms

Pri-miRNA profiling for single-cell RNA-seq data

rsoptsc

Cell-cell communication and lineage inference for scRNA-seq data

sccatch

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

sccatch_performance_comparison

The source code and results of performance comparison on the detail of the process among scCATCH, CellAssign, Garnett, SingleR, scMap and CHETAH, and CellMatch database

sccrosstalk

Infer and visualize cell-cell communication for single-cell RNA-seq data

scmap

A tool for unsupervised projection of single cell RNA-seq data

scvi

Deep generative modeling for single-cell omics data

seqfish-plus

seurat

R toolkit for single cell genomics