Repositories list

• ROBIN

  Public
  A package to run real time analysis of nanopore methylation data.

  Python

  •

  Other

  •3•15•12•0•Updated Jul 24, 2025Jul 24, 2025

• sturgeon

  Public
  Sturgeon is a CNS neural network classifier

  Python

  •

  Other

  •10•0•0•0•Updated Jul 7, 2025Jul 7, 2025

• Icarust

  Public
  A fully featured MinKNOW simulator for testing read until experiments.

  Rust

  •

  Mozilla Public License 2.0

  •9•23•10•0•Updated Apr 28, 2025Apr 28, 2025

• readfish

  Public
  CLI tool for flexible and fast adaptive sampling on ONT sequencers

  bioinformaticsgenomicssequencing+ 3oxford-nanoporeontadaptive-sampling

  Python

  •

  GNU General Public License v3.0

  •35•189•20•1•Updated Apr 28, 2025Apr 28, 2025

• barcode_paper_nb

  Public
  Companion repo for https://www.biorxiv.org/content/10.1101/2021.12.01.470722v1

  Jupyter Notebook

  •0•0•0•0•Updated Dec 18, 2024Dec 18, 2024

• LIFE4138

  Public
  teaching materials for life4138

  HTML

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Nov 8, 2024Nov 8, 2024

• bulkvis

  Public
  Python

  •

  MIT License

  •9•49•17•3•Updated Nov 7, 2024Nov 7, 2024

• ROBIN_test_set_A

  Public
  Control test data set for ROBIN

  GNU General Public License v3.0

  •0•2•0•0•Updated Oct 5, 2024Oct 5, 2024

• CNV_gene_plot

  Public
  A tool to generate CNV plots with the ability to plot GOIs from a bed file.

  Python

  •0•1•1•0•Updated Aug 7, 2024Aug 7, 2024

• minotourcli

  Public
  Python

  •

  MIT License

  •1•10•10•2•Updated Jul 2, 2024Jul 2, 2024

• ROBIN_cnv_object

  Public
  Python

  •0•0•0•0•Updated Jul 2, 2024Jul 2, 2024

• Icarust_supplementary_data

  Public
  Supplementary data for the corrsponding Icarust paper. See README.md for layout of files.

  Jupyter Notebook

  •

  Mozilla Public License 2.0

  •0•0•0•0•Updated Jun 20, 2024Jun 20, 2024

• rftools

  Public
  Tools for post processing readfish data

  Rust

  •

  MIT License

  •0•1•4•0•Updated Feb 9, 2024Feb 9, 2024

• Icarust_docker

  Public
  A stand alone docker based setup for Icarust, the readfish simulation software.

  Dockerfile

  •

  Mozilla Public License 2.0

  •0•0•3•0•Updated Jan 9, 2024Jan 9, 2024

• minFQ_BAM

  Public
  For reading of BAM files in minFQ

  Python

  •0•0•0•0•Updated Nov 28, 2023Nov 28, 2023

• ww_nf_minimal

  Public
  A minimal NXF workflow for analysing consortium wastewater data

  Perl

  •0•0•1•0•Updated Mar 15, 2023Mar 15, 2023

• minotourapp

  Public
  Minotour API, web and client code

  JavaScript

  •

  GNU General Public License v3.0

  •2•30•58•1•Updated Feb 15, 2023Feb 15, 2023

• swordfish

  Public
  Python

  •

  MIT License

  •0•3•4•0•Updated Nov 15, 2022Nov 15, 2022

• minotour-docker

  Public
  Test for minotour docker compose test

  Python

  •0•3•2•0•Updated Nov 3, 2022Nov 3, 2022

• looselab.github.io

  Public
  HTML

  •

  Other

  •1•0•0•0•Updated Jan 19, 2022Jan 19, 2022

• readfish-tools

  Public
  Utility command line tools for helping run readfish

  Python

  •0•0•0•0•Updated Nov 10, 2021Nov 10, 2021

• test_data

  Public
  a small test data set

  JavaScript

  •1•0•0•0•Updated Jul 23, 2021Jul 23, 2021

• file_creation_simulator

  Public
  Move fastq files from given dir to dir

  Python

  •0•0•0•0•Updated May 27, 2021May 27, 2021

• ONT_ARTIC_Summaries

  Public
  simple script to parse sequencing summary files to extract useful information and stats.

  Python

  •0•0•0•1•Updated Nov 9, 2020Nov 9, 2020

• read_until_api

  Public
  Read Until client library for Nanopore Sequencing

  Python

  •

  Other

  •14•0•0•0•Updated Jul 24, 2020Jul 24, 2020

• read_until_api_v2

  Public archive
  Python3 Read Until API implementation

  Python

  •

  Mozilla Public License 2.0

  •1•11•0•0•Updated Mar 11, 2020Mar 11, 2020

• NA12878

  Public
  Data and analysis for NA12878 genome on nanopore

  Python

  •

  Other

  •93•0•0•0•Updated Jan 16, 2019Jan 16, 2019

• Porechop

  Public
  adapter trimmer for Oxford Nanopore reads

  C++

  •

  GNU General Public License v3.0

  •133•0•0•0•Updated Aug 23, 2018Aug 23, 2018

• flowcellvis

  Public
  Animated GIF of flow cell performance from sequencing summary file.

  Python

  •1•0•0•0•Updated Feb 20, 2018Feb 20, 2018

• ont_minimap2

  Public
  C++

  •4•0•0•0•Updated Jan 4, 2018Jan 4, 2018