Stars
A pipeline for bioinformatics analysis of bacterial genomes
Fast and space-efficient taxonomic classification of long reads
A collection of genomics software tools written in Go (golang).
Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
Tools for fast and flexible genome assembly scaffolding and improvement
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
A tool to find sequencing data and metadata from public databases.
Utility to alias and dealias pango lineages
Identification of mutations in SARS-CoV-2 associated with resistance to treatment.
🐉 🪰 Assemble bacterial isolate genomes from Nanopore reads
Gotree is a set of command line tools and an API to manipulate phylogenetic trees. It is implemented in Go language.
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
NEW location of IQ-TREE software for efficient phylogenomic software by maximum likelihood https://www.iqtree.org
A set of scripts for calculating pairwise SNP distance
tools for assessing the accuracy of genome assemblies
Snvly is a tool aimed at quality control of DNA variants arising from sequencing alignments. It reports a suite of statistics about variants relating to their local alignment context in BAM files.
An interactive web-tool for RNA-seq analysis
a collection of scripts for organising bacterial genomes by species