zhongguozhiwang

ClusterGVis

One-step to Cluster and Visualize Gene Expression Matrix

pan-B

These are scripts for pan-cacner B cells analyses.

NCOMMS_NSCLC_scFibs

Code Associated with the Nature Communications Publication entitled "Single-cell analysis reveals prognostic fibroblast subpopulations linked to molecular and immunological subtypes of lung cancer"

CogVideo

Text-to-video generation: CogVideoX (2024) and CogVideo (ICLR 2023)

infercnv

Inferring CNV from Single-Cell RNA-Seq

sc-type

SCSA

SCSA: cell type annotation for single-cell RNA-seq data

MetaTiME

MetaTiME: Meta-components in Tumor immune MicroEnvironment

omicverse

A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.

Scillus

R Package for Single-Cell Dataset Processing and Visualization

cNMF

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

llama-agentic-system

Agentic components of the Llama Stack APIs

NetAct

Network construction Algorithm

Scissor

Scissor package

ggsankey

Make sankey, alluvial and sankey bump plots in ggplot

GseaVis

An implement R package to visualize GSEA results

chatgpt-web

使用 express 和 vue3 搭建的 ChartGPT 演示网页

seurat

R toolkit for single cell genomics

pySCENIC

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

Nebulosa

R package to visualize gene expression data based on weighted kernel density estimation

ggdensity

An R package for interpretable visualizations of bivariate density estimates

patchwork

The Composer of ggplots

mp_duty

抓取网络文章到github issues保存

SpatialImmunoCircle

Computing spatial variations around specific cell clusters in the immune microenvironment

Spatialspots

This document explains how to use three functions to calculate kernel density estimation (KDE), Moran's I statistic, Correlation, Wasserstein distance.

SpatiaInSituPlots

Spatial InSitu plot including gene expression and cell type

SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

MGEscore

CellType Definition by Marker Genes Expression

SoupX

R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data

decontX

Methods for decontamination of single cell data