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A list of interesting genome browser and genome visualization programs

Ultra-fast preprocessing and quality control for long-read sequencing data

🌳 Create a tree using Mash distances

snipit: summarise snps relative to your reference sequence

SPAdes Genome Assembler

传统色谱

中国传统色

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates

Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.

Standalone Python re-implementation of the POLCA polisher from MaSuRCA

A pipeline for running AMRfinderPlus and collating results into functional classes

Responsive, simple, clean and content-focused Hugo theme based on the MH Magazine lite WordPress theme

MMseqs2: ultra fast and sensitive search and clustering suite

Reorients assembled microbial sequences

Your One-Stop Publication Workbench

Java based tools for bulk downloading read/analysis files from ENA via FTP or Aspera.

Minimal but speedy quality control for nanopore reads in Rust 🐻

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

Phylodynamic inference

A quality control analysis tool for high throughput sequencing data

Within-species genome-wide dN/dS estimation from very many genomes

Assessing the quality of metagenome-derived genome bins using machine learning

➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2

breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is intended for haploid microbial genomes (<20 Mb). breseq is a com…

🎄Visualization and annotation of phylogenetic trees

A grammar of graphics for comparative genomics

A Perl script allowing to identify CRISPR arrays and associated Cas proteins from DNA sequences