Genome modeling and design across all domains of life

Integrating GWAS and spatial transcriptomics for spatially resolved mapping of cells associated with human complex traits.

A Bayesian model for compositional single-cell data analysis

🍰 Desktop utility to download images/videos/music/text from various websites, and more.

R package for MetaboAnalyst

This repository contains the code for pre-processing and data analysis of the AIDA Phase 1 dataset, which is described in: Single-cell analysis of human diversity in circulating immune cells (https…

微信视频号下载工具，支持视频、直播回放、直播下载

The single T cell annotation tool for scRNA-seq data

Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper

Customizable workflows based on snakemake and python for the analysis of NGS data

🤖 Python examples of popular machine learning algorithms with interactive Jupyter demos and math being explained

a program to design padlock probe for spatial transcriptome

Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.

Scissor package fixed for Seurat V5

AI实战-practicalAI 中文版

GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data

Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".

🍒 Cherry Studio is a desktop client that supports for multiple LLM providers. Support deepseek-r1

Code to run singleDeep for phenotype prediction of samples from scRNA-Seq data

This is the official code for the scSMD.

Human Endometrial Cell Atlas (HECA). An integrated single-cell reference atlas of the human endometrium.

This repository holds the scripts used to analyze the data presented in "A multi-omic single-cell landscape of human gynecologic malignancies", Regner et al., 2021

Database for collecting and curating scientific papers related to single-cell and spatial transcriptomics sequencing.

High precision, marker-based, hierarchical cell-type annotation tool for single-cell RNA-seq data

A minimal gene set characterizes multiple classes of tumor-specific TIL among different cancer types

R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of m…