Skip to content

@EdinburghGenomics Edinburgh Genomics

Change the repository type filter

All

    Repositories list

    32 repositories

    • NERC_EcologicalGenomics

      Public
      Bioinformatics Workflow for NERC Ecological Genomics training 2023
      0•1•0•0•Updated Nov 12, 2025Nov 12, 2025

    • illuminatus

      Public
      The all-knowing, all-seeing, enlightened pipeline for Illumina run processing.
      Python
      •
      Other
      •2•3•0•0•Updated Jul 2, 2025Jul 2, 2025

    • hesiod

      Public
      Reports on your Promethion (or other NanoPore) data.
      Python
      •
      Other
      •1•2•2•0•Updated Jun 12, 2025Jun 12, 2025

    • smrtino

      Public
      Run pipeline for PacBio Sequel SMRT cells
      Python
      •
      Other
      •1•1•2•0•Updated May 12, 2025May 12, 2025

    • snakemake

      Public
      Fork of Snakemake for adding patches and fixes for EdGe
      HTML
      •
      MIT License
      •639•0•0•0•Updated Apr 8, 2025Apr 8, 2025

    • snakemake-interface-executor-plugins

      Public
      This package provides a stable interface for interactions between Snakemake and its executor plugins.
      Python
      •
      MIT License
      •15•0•0•0•Updated Apr 8, 2025Apr 8, 2025

    • snakemake-executor-plugin-cluster-generic

      Public
      Generic cluster executor for Snakemake
      Python
      •
      MIT License
      •11•0•0•0•Updated Apr 8, 2025Apr 8, 2025

    • Analysis-Driver

      Public
      Pipelines for Illumina HiSeqX demultiplexing, sequence QC and variant calling.
      Python
      •0•8•12•1•Updated Dec 10, 2024Dec 10, 2024

    • bashmocker

      Public
      A Python helper for unit testing shell scripts.
      Python
      •
      Other
      •1•0•0•0•Updated Dec 4, 2024Dec 4, 2024

    • transfer_test_maker

      Public
      Helps to make pathological test cases for FTP downloads
      Python
      •0•0•0•0•Updated Oct 16, 2023Oct 16, 2023

    • clarity_scripts

      Public
      API and EPP scripts
      Python
      •
      MIT License
      •0•1•15•3•Updated Oct 3, 2023Oct 3, 2023

    • MultiQC_EdGen

      Public
      Plugin for MultiQC specific to use with Illuminatus pipeline
      Python
      •
      Other
      •0•1•0•0•Updated Oct 3, 2022Oct 3, 2022

    • MultiQC

      Public
      Edinburgh Genomics fork of the MultiQC project. You probably want to use the upstream version - fixes from here will be contributed back there.
      Python
      •
      GNU General Public License v3.0
      •660•0•0•0•Updated Aug 24, 2022Aug 24, 2022

    • EGCG-Project-Management

      Public
      Tools for managing the data generated by EdinburghGenomics/Analysis-Driver, including review, delivery and deletion.
      Python
      •
      Other
      •0•1•9•1•Updated Jun 21, 2022Jun 21, 2022

    • training_on_cloud

      Public
      Scripts and configuration and notes for running training desktops on cloud
      Python
      •
      MIT License
      •0•2•0•0•Updated May 26, 2022May 26, 2022

    • pyclarity-lims

      Public
      Python interface to the GenoLogics LIMS server via its REST API.
      Python
      •
      MIT License
      •54•11•6•0•Updated Mar 30, 2022Mar 30, 2022

    • blobtools

      Public
      Application for the visualisation of draft genome assemblies and general QC
      Python
      •
      GNU General Public License v3.0
      •46•0•0•0•Updated Dec 21, 2021Dec 21, 2021

    • Reporting-App

      Public
      A Flask web app for presenting bcl2fastq and variant calling performance reports from Analysis-Driver
      Python
      •
      Other
      •1•4•11•1•Updated May 6, 2021May 6, 2021

    • EGCG-Core

      Public
      Shared functionality across EGCG projects
      Python
      •
      Other
      •2•0•0•2•Updated Mar 25, 2021Mar 25, 2021

    • sf2-webapp

      Public
      Online SF2 web application
      JavaScript
      •
      MIT License
      •0•0•0•9•Updated Sep 10, 2020Sep 10, 2020

    • minion_qc

      Public
      Quality control for MinION sequencing data
      R
      •
      MIT License
      •43•1•0•0•Updated Aug 8, 2019Aug 8, 2019

    • genologics_sql

      Public
      Python interface for the Genologics Postgres database.
      Python
      •
      MIT License
      •9•0•0•0•Updated Jul 4, 2019Jul 4, 2019

    • well_duplicates

      Public
      localised duplicate detection on patterned flow cells
      Python
      •
      Other
      •2•10•0•0•Updated Feb 27, 2019Feb 27, 2019

    • Small_tools

      Public
      Python
      •0•0•0•0•Updated Jan 24, 2019Jan 24, 2019

    • Fastq-Filterer

      Public
      Filtering tiles and short reads from paired-end fastq files.
      C
      •
      MIT License
      •0•0•0•0•Updated Jun 4, 2018Jun 4, 2018

    • MultiQC_TestData

      Public
      Test data for MultiQC. See https://github.com/ewels/MultiQC
      HTML
      •
      MIT License
      •157•0•0•0•Updated Jul 21, 2017Jul 21, 2017

    • slurm_tools

      Public
      Some scripts we're using with the SLURM job scheduler
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated May 17, 2017May 17, 2017

    • RADmapper

      Public
      Set of scripts to create denovo consensus and map the read back
      Python
      •
      MIT License
      •2•0•0•0•Updated Nov 18, 2016Nov 18, 2016

    • clarity_view

      Public archive
      Small web app to offer alternative views of clarity LIMS
      HTML
      •0•0•0•0•Updated Aug 19, 2016Aug 19, 2016

    • report_generation

      Public archive
      suite of script for simple generation of report
      Python
      •0•0•0•0•Updated Jun 30, 2016Jun 30, 2016
    ProTip! When viewing an organization's repositories, you can use the props. filter to filter by custom property.