Argo: species-resolved profiling of antibiotic resistance genes in complex metagenomes through long-read overlapping

A short tandem repeat (STR) genotyping and analysis toolkit for long reads

An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.

ClairS - a deep-learning method for long-read somatic small variant calling

Linear-time de novo Long Read Assembler

Language models identify chimeric artificial reads in NanoPore direct-RNA sequencing data.

Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes

AltAnalyze version 3 is a Python3 library to integrate and compare diverse RNA isoform datasets.

Kmer Analysis of Pileups for Genotyping

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

Clair3-RNA - a long-read small variant caller for RNA sequencing data

Nextflow pipeline to assemble genomes from long reads.

Graph-based assembly phasing

Fast and space-efficient taxonomic classification of long reads

Assembly and binning of metagenomes

🔬 Genotyping tool for genome-edited samples, utilizing nanopore sequencer target sequencing

A snakemake pipeline to call structure variants from ONT data

a deep neural network model for mapping modifications in nanopore Long-read sequencing data

Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics

ClairS-TO - a deep-learning method for tumor-only somatic variant calling