Starred repositories
Open4Gene, A Hurdle Model-based Method for Peak-to-Gene Linkage Analysis
Spatial mapping of cell types by integration of transcriptomics data
R package implementation of Milo for testing for differential abundance in KNN graphs
Fast genome-wide functional annotation through orthology assignment
STAgent is a multimodal LLM-based AI agent that enables deep research about spatial transcriptomics data
Command line tool for the Mermaid library
Generation of diagrams like flowcharts or sequence diagrams from text in a similar manner as markdown
Data visualization is the visual presentation of data or information. The goal of data visualization is to communicate data or information clearly and effectively to readers. Typically, data is vis…
Curated resources about Data Visualization, Drawing & Publishing in R
Easy-Shu / Beautiful-Visualization-with-Python
Forked from hodlforever/Beautiful-Visualization-with-pythonpython数据可视化之美
Jupyter notebook based genomic data visualization toolkit.
python module to plot beautiful and highly customizable genome browser tracks
End-to-end analysis of spatial multi-omics data
An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
Comprehensive suite for evaluating perturbation prediction models
topr is a collection of plotting functions for visualizing and exploring genetic association results. Association results from multiple phenotypes can be viewed simultaneously, over the entire geno…
Examples on how to use the karyoploteR R/Bioconductor package
ATLAS - Three commands to start analyzing your metagenome data
Ultra-fast and memory-efficient (meta-)genome assembler
Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
[DEPRECATED] A repository for sharing D3.js V3 plugins.
Pipeline framework for iteratively and reproducibly building and evaluating single cell atlases
A new simple and efficient software to PCA and Cluster For popolation VCF File
scDoRI (single-cell Deep multi-Omic Regulatory Inference) is a deep learning model to infer enhancer-mediated gene regulatory networks (eGRNs) from single-cell multiome data (RNA + ATAC).
Cell2Sentence: Teaching Large Language Models the Language of Biology
[NeurIPS 2025] 🌐 WebThinker: Empowering Large Reasoning Models with Deep Research Capability