Stars
OCR software, free and offline. 开源、免费的离线OCR软件。支持截屏/批量导入图片，PDF文档识别，排除水印/页眉页脚，扫描/生成二维码。内置多国语言库。
Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)
Robust identification of orthologous Synteny with the Orthology Index
HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data
Trinity RNA-Seq de novo transcriptome assembly
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
BioGeography with Bayesian (and likelihood) Evolutionary Analysis with R Scripts
a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
为GPT/GLM等LLM大语言模型提供实用化交互接口，特别优化论文阅读/润色/写作体验，模块化设计，支持自定义快捷按钮&函数插件，支持Python和C++等项目剖析&自译解功能，PDF/LaTex论文翻译&总结功能，支持并行问询多种LLM模型，支持chatglm3等本地模型。接入通义千问, deepseekcoder, 讯飞星火, 文心一言, llama2, rwkv, claude2, m…
Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.
GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data
Software for painlessly estimating average nucleotide diversity within and between populations
Biogeographic dating of speciation times using paleogeographically informed processes
Run Rstudio Server in a conda environment
ChIP-seq analysis notes from Ming Tang
Data and code for "Modeling phylogenetic biome shifts on a planet with a past"
A statistical framework for ploidy estimation using NGS short-read data
Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species
structural variant calling and genotyping with existing tools, but, smoothly.
Tutorials on phylogenetic and phylogenomic inference
Learn and practice the bioinformatics skills in 100 Days.
Scripts to handle NGS data and other biological data
Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
📮 A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool For Genome-Wide Association Study