Visualization tool for (meta)genome assembly graphs

🔗🐍⏭️ PyO3 bindings and Python interface to FragGeneScanRs, a gene prediction model for short and error-prone reads

BRIG is a cross-platform (Windows/Mac/Linux) application that displays circular comparison images of multiple genomes using BLAST.

Machine-learning-based bacterial terminator detector

Cython bindings and Python interface to ARAGORN, a (t|mt|tm)RNA gene finder.

Cython bindings and Python interface to Infernal 1.1.

Fast, parallel Rust implementation of Prodigal for prokaryotic gene prediction in microbial genomes

Convert genbank files to a swath of other formats

Rapid & standardized genome annotation using protein structural information

Fetch, filter, and explore microbial metadata from NCBI with ease.

Plot genomics data fast

Plasmid annotation pipeline

SemiBin: metagenomics binning with self-supervised deep learning

Phage Annotation using Protein Structures

geNomad: Identification of mobile genetic elements

ARG normalization by mapping to the ARO ontology.

A python library and command-line client for file storage on OSF

MGnify genome analysis pipeline

A tool for generating consensus long-read assemblies for bacterial genomes

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

Nail is an Alignment Inference tooL

Genome size estimation from long read overlaps

Remove human reads from a sequencing run

a python package for finding tandem repeats from genomic sequences

Parallel S3 and local filesystem execution tool.

An integrated pipeline for estimating strain-level genomic variation from metagenomic data

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