Nanopore Python Packages

lib-pod5

Pod5: a high performance file format for nanopore reads.

pod5

Pod5: a high performance file format for nanopore reads.

deepchopper-cli

Genomic Language Model Mitigates Chimera Artifacts in Nanopore Direct RNA Sequencing

deepchopper

Genomic Language Model Mitigates Chimera Artifacts in Nanopore Direct RNA Sequencing

pyspoa

Python bindings to spoa

sequali

Fast sequencing data quality metrics

medaka

Sequence correction provided by ONT Research

dajin2

🔬 Genotyping tool for genome-edited samples using nanopore-targeted sequencing

sniffles

Structural variation caller using third generation sequencing

medaka-cpu

Sequence correction provided by ONT Research

pycoqc

pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)

recentrifuge

Recentrifuge: robust comparative analysis and contamination removal for metagenomics

isoquant

Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)

nanocompore

RNA modifications detection from Nanopore dRNA-Seq data

pod5-format

Python bindings for the POD5 file format

poriscope

A tool for selecting and analyzing nanopore data.

ont-remora

Methylation/modified base calling separated from basecalling.

deeprm

Deep learning for RNA Modification

ampligone

AmpliGone is a tool which accurately removes primer sequences from FastQ NGS reads in an amplicon sequencing experiment

ont-bonito

A PyTorch Basecaller for Oxford Nanopore Reads

biolic

Placeholder for biolic, a fast streaming bioinformatics toolkit. Python bindings are planned; the tool currently ships as a Rust CLI.

dynamont

Segmentation/resquiggling tool for ONT signals.

pynanolab

all in one GUI software for data analysis and visualization

hairloom

A package to analyze split reads of long read data