Projects in Awesome Lists by nanoporetech

https://github.com/nanoporetech/dorado

Oxford Nanopore's Basecaller

basecalling genomics libtorch nanopore

Last synced: 15 May 2025

https://github.com/nanoporetech/medaka

Sequence correction provided by ONT Research

medaka nanopore

Last synced: 15 May 2025

https://github.com/nanoporetech/bonito

A PyTorch Basecaller for Oxford Nanopore Reads

basecalling nanopore pytorch

Last synced: 14 May 2025

https://github.com/nanoporetech/tombo

Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.

epigenetics

Last synced: 05 Apr 2025

https://github.com/nanoporetech/megalodon

Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

basecalling epigenetics guppy variant-calling

Last synced: 29 Mar 2025

https://github.com/nanoporetech/fast-ctc-decode

Blitzing Fast CTC Beam Search Decoder

beam-search ctc-decode viterbi

Last synced: 05 Apr 2025

https://github.com/nanoporetech/modkit

A bioinformatics tool for working with modified bases

methylation modified-bases nanopore

Last synced: 05 Apr 2025

https://github.com/nanoporetech/remora

Methylation/modified base calling separated from basecalling.

basecalling methylation nanopore

Last synced: 06 Apr 2025

https://github.com/nanoporetech/pod5-file-format

Pod5: a high performance file format for nanopore reads.

apache-arrow file-format nanopore

Last synced: 15 May 2025

https://github.com/nanoporetech/ont_fast5_api

Oxford Nanopore Technologies fast5 API software

Last synced: 05 Apr 2025

https://github.com/nanoporetech/rerio

Research release basecalling models and configurations

basecalling nanopore

Last synced: 13 Apr 2025

https://github.com/nanoporetech/read_until_api

Read Until client library for Nanopore Sequencing

Last synced: 07 May 2025

https://github.com/nanoporetech/pomoxis

Analysis components from Oxford Nanopore Research

Last synced: 09 Apr 2025

https://github.com/nanoporetech/jmespath-ts

Typescript translation of the jmespath.js package

Last synced: 17 Mar 2025

https://github.com/nanoporetech/minknow_api

Protobuf and gRPC specifications for the MinKNOW API

Last synced: 05 Apr 2025

https://github.com/nanoporetech/kmer_models

Predictive kmer models for development use

Last synced: 21 Feb 2025

https://github.com/nanoporetech/duplex-tools

Splitting of sequence reads by internal adapter sequence search

Last synced: 13 Apr 2025

https://github.com/nanoporetech/katuali

Analysis pipelines from Oxford Nanopore Technologies' Research Division

Last synced: 13 Apr 2025

https://github.com/nanoporetech/vbz_compression

VBZ compression plugin for nanopore signal data

compression hdf5 nanopore

Last synced: 06 Apr 2025

https://github.com/nanoporetech/pipeline-umi-amplicon

Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers

Last synced: 13 Apr 2025

https://github.com/nanoporetech/bwapy

Python bindings to bwa mem

Last synced: 13 Apr 2025

https://github.com/nanoporetech/fast5_research

Fast5 API provided by ONT Research

Last synced: 13 Apr 2025

https://github.com/nanoporetech/pyspoa

Python bindings to spoa

alignment multiple-sequence-alignment nanopore poa

Last synced: 13 Apr 2025

https://github.com/nanoporetech/minimappy

Python bindings to minimap2

Last synced: 13 Apr 2025

https://github.com/nanoporetech/dtr-phage-pipeline

Last synced: 13 Apr 2025

https://github.com/nanoporetech/isonclust2

A tool for de novo clustering of long transcriptomic reads

cdna rna rna-seq transcriptomics

Last synced: 13 Apr 2025

https://github.com/nanoporetech/jmespath-plus

JMESPath with extended collection of built-in functions

Last synced: 13 Apr 2025

https://github.com/nanoporetech/ont_h5_validator

Last synced: 13 Apr 2025

https://github.com/nanoporetech/pipeline-polya-diff

Pipeline for testing shifts in poly(A) tail lengths estimated by nanopolish

direct-rna nanopolish poly-a rna

Last synced: 13 Apr 2025

https://github.com/nanoporetech/drna-paper-scripts

Direct RNA publication scripts

Last synced: 13 Apr 2025

https://github.com/nanoporetech/epi2me-api

API for communicating with the EPI2ME Platform for nanopore data analysis. Used by EPI2ME Agent & CLI.

bioinformatics epi2me metrichor minknow nanopore

Last synced: 13 Apr 2025

https://github.com/nanoporetech/pipeline-polya-ng

Pipeline for calling poly(A) tail lengths from nanopore direct RNA data using nanopolish

direct-rna nanopolish poly-a rna

Last synced: 13 Apr 2025

Last synced: 21 Feb 2025