A versatile pairwise aligner for genomic and spliced nucleotide sequences

Read Assignment, Mapping, and Phylogenetic Analysis in Real Time

DeepMicrobes: taxonomic classification for metagenomics with deep learning

Metagenomic classification of long-read sequencing data

Sequence correction provided by ONT Research

Taxonomic classification of DNA sequences

CNN based classifier for detecting viral sequences among metagenomic contigs

Data analysis of Funannotate and Orthofinder outputs to Pangenome results

Eukaryotic Genome Annotation Pipeline

quality filtering tool for long reads

⚡ ♒ Rapid prokaryotic genome annotation

MARVEL: Metagenomic Analyses and Retrieval of Viral ELements

🐙 A curated database of completed assemblies with taxonomy IDs

A tool to circularize genome assemblies

Read Until client library for Nanopore Sequencing

Centroid RNA package

Conda documentation

RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.

HMMER: biological sequence analysis using profile HMMs

PyDock Tutorial

Accurate metagenomi/metatranscriptomic analysis pipeline

viralFlye pipeline

map Illumina metagenomes to genomes!

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture

AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing