huangl07

GraphAligner

minigraph

Sequence-to-graph mapper and graph generator

paragraph

Graph realignment tools for structural variants

TGG

tomato graph pangenome

vg

tools for working with genome variation graphs

ultraplex

Ultra-fast 5' and 3' demultiplexer

Genoppi

Genoppi: an open-source software for robust and standardized integration of proteomic and genetic data

pwas

Proteome-Wide Association Study

XCharts

A charting and data visualization library for Unity. Unity数据可视化图表插件。

Genome-annotation-pipeline

Genome annotation pipeline

Sniffles

Structural variation caller using third generation sequencing

msisensor

microsatellite instability detection using tumor only or paired tumor-normal data

BWA-MEME

Faster BWA-MEM2 using learned-index

kingfisher-download

Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.

SALSA

SALSA: A tool to scaffold long read assemblies with Hi-C data

CNVpytor

a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads

sftpgo

Full-featured and highly configurable SFTP, HTTP/S, FTP/S and WebDAV server - S3, Google Cloud Storage, Azure Blob

miniprot

Align proteins to genomes with splicing and frameshift

ggheatmap

ggplot2 version of heatmap

wgdi

WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes

CMplot

📊 Circular and Rectangular Manhattan Plot

tutorials

Tutorials on evolutionary genomics

SNP_Primer_Pipeline2

Design gene specific KASP and CAPS/dCAPS primers for any species

easylift

shifts hg19/38 genomic position for feasible input format.

BWA-MEME

BWA-MEME: Faster BWA-MEM2 using learned-index

maize_for_Li

This is the script repository for Mr. Li's article

DingtalkChatbot

钉钉群自定义机器人消息Python封装

Dsuite

Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species

Heritability_WGS

This repository contains the code used for estimating heritability from WGS data

BGLR-R