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    36 repositories

    • readfish

      Public
      CLI tool for flexible and fast adaptive sampling on ONT sequencers
      bioinformaticsgenomicssequencingoxford-nanoporeontadaptive-sampling
      Python
      •
      GNU General Public License v3.0
      •35•170•16•0•Updated Jan 24, 2025Jan 24, 2025

    • ROBIN

      Public
      A package to run real time analysis of nanopore methylation data.
      Python
      •
      Other
      •0•3•9•0•Updated Jan 23, 2025Jan 23, 2025

    • sturgeon

      Public
      Sturgeon is a CNS neural network classifier
      Python
      •
      Other
      •8•0•0•0•Updated Jan 23, 2025Jan 23, 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•46•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•0•1•0•Updated Aug 7, 2024Aug 7, 2024

    • Icarust

      Public
      A fully featured MinKNOW simulator for testing read until experiments.
      Rust
      •
      Mozilla Public License 2.0
      •7•17•8•0•Updated Jul 10, 2024Jul 10, 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•29•58•1•Updated Feb 15, 2023Feb 15, 2023

    • swordfish

      Public
      Python
      •
      MIT License
      •0•2•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
      •13•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
      •92•0•0•0•Updated Jan 16, 2019Jan 16, 2019

    • Porechop

      Public
      adapter trimmer for Oxford Nanopore reads
      C++
      •
      GNU General Public License v3.0
      •130•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