nanopore-reads

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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 athttps://academic.oup.com/bioinformatics/article/39/Supplement_1/i297/7210440).

bioinformatics nanopore seeding segmentation event-detection genome-analysis hash-tables contamination read-mapping relative-abundances nanopore-sequencing nanopore-analysis-pipeline nanopore-reads nanopore-data nanopore-minion raw-signal rawhash raw-nanopore-signal-analysis

UpdatedDec 9, 2024
C

ImagoXV /NanoASV

Star8

NanoASV official repo

docker open-source workflow bioinformatics snakemake nanopore end-to-end conda singularity bioinformatics-pipeline metabarcoding conda-environment asv amplicon-sequencing nanopore-sequencing snakemake-workflow nanopore-analysis-pipeline nanopore-reads nanopore-minion metabarcoding-pipeline

UpdatedMar 19, 2025
Shell

masikol /barapost

Star5

Toolkit for binning FASTA, FASTQ and FAST5 files according to taxonomic annotation

bioinformatics blast contigs taxonomic-binning nanopore-reads

UpdatedFeb 5, 2025
Python

IBCHgenomic /panscape

Star2

reads to genome, pangenome graphs, summarize and analyze

bioinformatics pacbio-data nanopore-sequencing nanopore-reads pacbio-sequencing

UpdatedFeb 26, 2025
Rust

dlaehnemann /create-ecdna-testing-data

Star0

A Snakemake workflow for creating testing data for ecDNA analysis workflows: long reads (Nanopore with NanoSim) and short reads (Illumina with seqkit and mason).

workflow snakemake simulation illumina-sequencing ecdna circular-dna nanopore-reads

UpdatedFeb 12, 2025
Python

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