✂️ ⚡ Rapid haploid variant calling and core genome alignment

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

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

🐙 A curated database of completed assemblies with taxonomy IDs

Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to construct a phylogenetic tree. Provides evolutionary analyses (gene…

IRMA (the Iterative Refinement Meta-Assembler) is a highly configurable and adaptive tool for virus genome assembly.

Benchmark and toy datasets

This is a template for any new hash-based MLST database

Make a bootstrap MLST tree from your profiles