fanvanf

ggpathway

A tutorial for pathway visualization using tidyverse, igraph, and ggraph

geektime-books

:books: 极客时间电子书

tidybulk

Brings bulk and pseudobulk transcriptomics to the tidyverse

RNA-seq-analysis

RNAseq analysis notes from Ming Tang

Bioinfo_course_R

omicverse

A python library for multi omics included bulk and single cell RNA-seq analysis.

FASTKs

Pipeline for generate Ks plots of transcriptome data.

CRBHits

[CRBHits](https://github.com/kullrich/CRBHits) is a reimplementation of the Conditional Reciprocal Best Hit algorithm [crb-blast](https://github.com/cboursnell/crb-blast) in R.

pandagma

Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.

gbdraw

A genome diagram generator for microbes

orthogene

🧬 o r t h o g e n e 🧬✨✨✨✨✨✨✨ Interspecies gene mapping✨✨✨✨✨ 🦠 🔁 🌱 🔁 🌳 🔁 🍎 🔁 🍊 🔁 🪱 🔁 🪰 🔁 🐟 🔁 🦎 🔁 🐓 🔁 🦇 🔁 🐄 🔁 🐖 🔁 🐐 🔁 🐎 🔁 🐈 🔁 🐕 🔁 🐁 🔁 🐒 🔁 🦧 🔁 🦍 🔁 🏃‍♀️

vulture

Find dead Python code

Scrapegraph-ai

Python scraper based on AI

LeetCode.jl

A community driven project to provide solutions for LeetCode problems in the Julia programming language.

timeline-sankey

A project to visualize time range series data using the Sankey diagram.

sankeydiagram.net

sankeydiagram.net is an easy-to-use webapp for generating Sankey Diagrams to visualize flows and budgets.

awesome_kreport_charts

Awesome charts for kreport files (kraken-style reports)

cvmcore

bacannot

Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

cycle-import-check

JS module circular dependency check tool

LinearDisplay

LinearDisplay.pl is a program that generates publication quality linear maps of user-defined genetic features (e.g., ORFs, promoters, transcriptional terminators, restriction enzyme recognition sites, primer-binding sites, phage attachment sites, target site duplications, assembly/contig breaks and RNA structures). It can also depict circular clusters like those used in network diagrams.

GWENA

Gene Co-expression Network analysis pipeline

rapidgzip

Gzip Decompression and Random Access for Modern Multi-Core Machines

APERO

small RNA detection from paired-end RNA-seq data

RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

noveltree

NovelTree is a highly parallelized and computationally efficient phylogenomic workflow that infers gene families, gene family trees, species trees, and gene family evolutionary history.

showTree

showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.

Willisornis_Genome_Assembly

The repository describes all pipelines used to annotate and analyze the genome of Willisornis poecilinotus.

midgenomes

Shared genomic features of chironomid midges

genome-assemble-and-annotation

基因组组装注释流程及脚本