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dorado
Oxford Nanopore's Basecallermedaka
Sequence correction provided by ONT Researchbonito
A PyTorch Basecaller for Oxford Nanopore Readstombo
Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.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.fast-ctc-decode
Blitzing Fast CTC Beam Search Decoderremora
Methylation/modified base calling separated from basecalling.ont_fast5_api
Oxford Nanopore Technologies fast5 API softwaremodkit
A bioinformatics tool for working with modified basespod5-file-format
Pod5: a high performance file format for nanopore reads.taiyaki
Training models for basecalling Oxford Nanopore readspipeline-structural-variation
Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore datapipeline-transcriptome-de
Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long readsread_until_api
Read Until client library for Nanopore Sequencingrerio
Research release basecalling models and configurationsflappie
Flip-flop basecaller for Oxford Nanopore readspomoxis
Analysis components from Oxford Nanopore Researchscrappie
Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms groupont-assembly-polish
ONT assembly and Illumina polishing pipelinepychopper
A tool to identify, orient, trim and rescue full length cDNA readsqcat
qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.jmespath-ts
Typescript translation of the jmespath.js packagewub
Tools and software library developed by the ONT Applications groupminknow_api
Protobuf and gRPC specifications for the MinKNOW APIpore-c
Pore-C supportkmer_models
Predictive kmer models for development usekatuali
Analysis pipelines from Oxford Nanopore Technologies' Research Divisionduplex-tools
Splitting of sequence reads by internal adapter sequence searchpinfish
Tools to annotate genomes using long read transcriptomics datasockeye
Single Cell Transcriptomicsvbz_compression
VBZ compression plugin for nanopore signal datapipeline-nanopore-ref-isoforms
Pipeline for annotating genomes using long read transcriptomics data with stringtie and other toolsPore-C-Snakemake
bwapy
Python bindings to bwa memont_tutorial_basicqc
A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txtpyguppyclient
Python client library for Guppypipeline-umi-amplicon
Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifierspipeline-pinfish-analysis
Pipeline for annotating genomes using long read transcriptomics data with pinfishpipeline-nanopore-denovo-isoforms
Pipeline for de novo clustering of long transcriptomic readssloika
Sloika is Oxford Nanopore Technologies' software for training neural network models for base callingfast5_research
Fast5 API provided by ONT Researchpyspoa
Python bindings to spoaDTR-phage-pipeline
minimappy
Python bindings to minimap2isONclust2
A tool for de novo clustering of long transcriptomic readsjmespath-plus
JMESPath with extended collection of built-in functionsminknow_lims_interface
Protobuff and gRPC specifications for the MinKNOW LIMS Interfacefast5mod
Extract modifed base call information from Guppy Fast5 files.ont_h5_validator
dRNA-paper-scripts
Direct RNA publication scriptscurrennt
Modified fork of CURRENNT https://sourceforge.net/projects/currennt/pipeline-polya-diff
Pipeline for testing shifts in poly(A) tail lengths estimated by nanopolishont-open-datasets
Website describing data releases, and providing additional resources.pipeline-polya-ng
Pipeline for calling poly(A) tail lengths from nanopore direct RNA data using nanopolishts-runtime-typecheck
A collection of common types for TypeScript along with dynamic type cast methods.epi2me-api
API for communicating with the EPI2ME Platform for nanopore data analysis. Used by EPI2ME Agent & CLI.cronkite
One **hell** of a reportermako
Analyte identification via squiggles.marine-phage-paper-scripts
homebrew-tap
Homebrew casks for applications from Oxford Nanopore Technologies PLC and Metrichor Ltd.barcoding
Naïve barcode deconvolution for ampliconsont-minimap2
Cross platform builds for minimap2plasmid-map
Plasmid map visualisations for Metrichor reportsspliced_bam2gff
hammerpede
A package for training strand-specific profile HMMs for primer sets from real Nanopore datahatch-protobuf
Hatch plugin for generating Python files from Protocol Buffers .proto filesfastq-filter
Quality and length filter for FastQ databripy
Bam Read Index for pythonpipeline-pychopper
Utility pipeline for running pychopper, a tool to identify full length cDNA readslamprey
GUI for desktop basecallingpanga
data-rambler
An experimental language for a JSON query, transformation and streaminggetopt-win32
onesie
A Linux device-driver for the MinION-mk1Cvbz-h5py-plugin
fs-inspect
node.js library for indexing the contents of a folderLove Open Source and this site? Check out how you can help us