medchenhao's Stars
scverse/scanpy
Single-cell analysis in Python. Scales to >1M cells.
YuLab-SMU/clusterProfiler
:bar_chart: A universal enrichment tool for interpreting omics data
Starlitnightly/omicverse
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
GreenleafLab/ArchR
ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
MarioniLab/miloR
R package implementation of Milo for testing for differential abundance in KNN graphs
stuart-lab/signac
R toolkit for the analysis of single-cell chromatin data
mtennekes/cols4all
Colors for all (R package)
broadinstitute/CellBender
CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
constantAmateur/SoupX
R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
plger/scDblFinder
Methods for detecting doublets in single-cell sequencing data
campbio/celda
Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
changwn/scFEA
single cell Flux Estimation Analysis (scFEA) Try the below web server!
EDePasquale/DoubletDecon
A tool for removing doublets from single-cell RNA-seq data
Zaoqu-Liu/BioEnricher
Integrate Analysis and Visualization for Bioinformatic Enrichment Analyzer
BioSenior/ggVolcano
The goal of `ggVolcano` is to help users make a beautiful volcano map more easily, including general volcano plot(`ggvolcano`), gradient color volcano plot(`gradual_volcano`) and GO term volcano plot(`term_volcano`).
Yuko-VPN/VPN
Yuko冲浪室之防迷路指南~
xmc811/Scillus
R Package for Single-Cell Dataset Processing and Visualization
guokai8/scGSVA
scGSVA: Perform GSVA for single cell RNA seq
campbio/decontX
Methods for decontamination of single cell data
almeidasilvaf/BioNERO
Easy and comprehensive biological network reconstruction and analysis
bicciatolab/popsicleR
popsicleR, a flexible R package aimed at providing most of the necessary quality controls and preliminary information for complete and detailed analysis of single cell RNA-seq data.
mckellardw/scMuscle
The Cornell Single-Cell Muscle Project (scMuscle) aims to collect, analyze and provide to the research community skeletal muscle transcriptomic data
13308204545/Chord
remove single cells Doublets by integrating tools!
JarningGau/ProjectSVR
A package for reference mapping and nice visualization
JarningGau/GeneCooc
SDTC-CPMed/scDrugPrio
Network analyses of single cell-based digital twins for personalized treatment of inflammatory disease
JarningGau/scutilsR
ShengFang-0829/scgmt
Integrating multiple single cell rank-based gene set enrichment analysis together and multiple visual display methods.
campbio-manuscripts/decontPro
Recapitulates analysis for decontPro manuscript