snakemake pipeline based on nanopolish
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Updated
Feb 6, 2020 - Python
snakemake pipeline based on nanopolish
PuntSeq - Chasing the microbial diversity of Cambridge's freshwater
Impact of lossy compression of nanopore raw signal data on basecall and consensus accuracy
This is just small command line pipeline to simplify going from ONT Unbasecalled data using Guppy to Assembly using Flye, all of the tools are existing tools.
Rapid comprehensive adaptive nanopore-sequencing of CNS tumours set-up and analysis pipeline
A pipeline for high-quality bacterial genome construction using ONT sequencing
Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.
zeo++ fork of the LSMO
Nanopore sequencing experimental protocols and computational pipelines
A generic best practice workflow for processing human Oxford Nanopore Technologies (ONT) sequencing data.
Nextflow pipeline for analysis of direct RNA Nanopore reads
Analysis of sequencing error profile for long read data.
A bioinformatic pipeline for aligning amplicon reads to a DNA database based on Nextflow
Species-level Taxonomic Abundance from 16S rRNA Sequencing (STARS)
Pipeline to assemble oxford nanopore long sequencing reads and perform variant calling with long and short reads
Dorado-basecalled reads improve old bacterial genome assembly
NanoASV official repo
Haplotype aware variant calling from long read sequence
RawHash is the first mechanism that can accurately and efficiently map raw nanopore signals to large reference genomes (e.g., a human reference genome) in real-time without using powerful computational resources (e.g., GPUs). Described by Firtina et al. (published at https://academic.oup.com/bioinformatics/article/39/Supplement_1/i297/7210440)
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