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ggtree for phylogenetic trees

Phylogenetic trees are used to show the evolutionary relationships between different species or genes. The ggtree package in R is a powerful tool for visualizing these…

tidyplots for R plotting

I noticed a new R package called “tidyplots” produced by Jan Broder Engler. This package could generate publication ready plots with simple commands, which largely…

Transfer GFF to GTF file

GFF3 (Generic Feature Format Version 3) file format represents the genomic features in a simple text-based tab-delimited file

gfatools for GFA (graphical fragment assembly) files

GFA (Graphical Fragment Assembly) format is used for sequence assembly graphs. It was proposed by Prof. Dr. Heng Li in 2014. Here is his proposal: https://lh3.github.io/2014…

Illustrate: Non-photorealistic Biomolecular Illustration

Illustrate is a small Fortran program for creating non-photorealistic illustrations of molecules, with cartoony colors and outlines, and soft ambient shadows. I originally…

FamDB database download

# 设置 URL 列表
URLS=(
"https://www.dfam.org/releases/current/families/FamDB/dfam39_full.0.h5.gz"
"https://www.dfam.org/releases/current/families/FamDB/dfam39_full.0.h5.gz.md5"
…

Git Push every repo in a folder

When working with multiple Git repositories inside a single parent folder, it can be tedious to git pull or git push each one individually. This guide shows you how to…

Manhattan Plot for GWAS Results

曼哈顿图（Manhattan Plot)是基因组范围内关联研究（GWAS）中常用的可视化工具，用于展示单核苷酸多态性（SNP）与表型之间的关联。它通过在x轴上绘制基因组位置，在y轴上绘制-log10(p-value)来显示每个SNP的显著性水平。

Dynamically adjust the process cores number

In high-performance computing or scripting environments, it’s often useful to dynamically adjust the number of threads used based on the time of day.