nanopore-analysis-pipeline
There are 22 repositories under nanopore-analysis-pipeline topic.
biocorecrg/master_of_pores
Nextflow pipeline for analysis of direct RNA Nanopore reads
CMU-SAFARI/RawHash
RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genomes) in real-time without basecalling. Described by Firtina et al. (published at https://academic.oup.com/bioinformatics/article/39/Supplement_1/i297/7210440).
BeatsonLab-MicrobialGenomics/micropipe
A pipeline for high-quality bacterial genome construction using ONT sequencing
gaolabtools/scNanoGPS
Single cell Nanopore sequencing data for Genotype and Phenotype
cdelahaye/SeqFaiLR
Analysis of sequencing error profile for long read data.
CarolinaPB/nanopore-assembly
Pipeline to assemble oxford nanopore long sequencing reads and perform variant calling with long and short reads
lsmo-epfl/zeopp-lsmo
zeo++ fork of the LSMO
HKU-BAL/ONT-TB-NF
Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.
ImagoXV/NanoASV
NanoASV official repo
shubhamchandak94/lossy_compression_evaluation
Impact of lossy compression of nanopore raw signal data on basecall and consensus accuracy
leahkemp/ont_human_workflow
A generic best practice workflow for processing human Oxford Nanopore Technologies (ONT) sequencing data.
AndreHolzer/PuntSeq
PuntSeq - Chasing the microbial diversity of Cambridge's freshwater
baynec2/nanopore_pipelines
Nanopore sequencing experimental protocols and computational pipelines
Meadowlion/LM_ToolKit
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.
STTLab/HIV-64148
HIV-64148, an integration of multiple long-read genome assemblers with a pipeline for analysis of HIV-1 genomic data from Oxford Nanopore Sequencing Technology or PacBio Real-Time (SMRT) Sequencing technology.
areebapatel/Rapid-CNS2
Rapid comprehensive adaptive nanopore-sequencing of CNS tumours set-up and analysis pipeline
chaoatic/amplimap-nf
A bioinformatic pipeline for aligning amplicon reads to a DNA database based on Nextflow
chaoatic/STARS
Species-level Taxonomic Abundance from 16S rRNA Sequencing (STARS)
Kathirvel-Kandasamy/Haplotype-aware-variant-calling-from-long-read-sequence
Haplotype aware variant calling from long read sequence
marcDabad/snakemake_nanometh
snakemake pipeline based on nanopolish
asadprodhan/Dorado-basecalled-reads-improve-old-bacterial-genome-assembly
Dorado-basecalled reads improve old bacterial genome assembly