Fast and accurate de novo assembler for long reads

NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations

Long read based human genomic structural variation detection with cuteSV

Nanopore sequence read simulator

PEPPER-Margin-DeepVariant

CLI tool for flexible and fast adaptive sampling on ONT sequencers

Technology agnostic long read analysis pipeline for transcriptomes

Assembly and intrahost/low-frequency variant calling for viral samples

🌈Scaffold genome sequence assemblies using linked or long read sequencing data

H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)

Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome

A Python library to visualize and analyze long-read transcriptomes

⛏ HLA predictions from NGS shotgun data

A versatile compressor of third generation sequencing reads.

De novo clustering of long transcript reads into genes

Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.

Nanopore data analysis in R

Predict plasmids from uncorrected long read data

A pipeline for high-quality bacterial genome construction using ONT sequencing

Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.