⚡ ♒ Rapid prokaryotic genome annotation

✂️ ⚡ Rapid haploid variant calling and core genome alignment

🔎 💊 Mass screening of contigs for antimicrobial and virulence genes

A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.

Rapid large-scale prokaryote pan genome analysis

⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads

De-Novo Repeat Discovery Tool

Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation

Application of pan-genome for population

A toolbox for pangenome analysis and threshold evaluation.

Circos is a software package for visualizing data and information. It visualizes data in a circular layout — this makes Circos ideal for exploring relationships between objects or positions.

Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)

🐙 A curated database of completed assemblies with taxonomy IDs

Calculate GC% and GC deviation for circular genomes

A Nextflow pipeline for running synteny analysis.

🐾 QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run

NCBI Pathogen Detection Portal toolkit

Scripts and reference files to type streptococcus pneumoniae

Scripts and reference files to type Group A Streptococcus

MAECI: A Tool For Integrating Multiple Assemblies Into A Consensus Sequence Base On Nanopore Sequencing Data

Generic distances to trees pipeline

Earmarking a tool that would read kraken raw output and detect chimera reads or contigs