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    72 repositories

    • relecov-platform

      Public
      genomic surveillance web platform for respiratory viruses used by RELECOV network in Spain
      bioinformaticssurveillanceinteroperabilitydata-sharingfair-datacovid-19
      Python
      •
      GNU General Public License v3.0
      •10•1•18•2•Updated Jul 21, 2025Jul 21, 2025

    • relecov-tools

      Public
      set of helper tools for the assembly of the different elements in the RELECOV platform (Spanish Network for genomic surveillance of SARS-Cov-2) as data download, processing, validation and upload to public databases, as well as analysis runs and database storage.
      bioinformaticsgenomicssurveillancecovid-19sars-cov-2
      HTML
      •
      GNU General Public License v3.0
      •26•7•22•3•Updated Jul 21, 2025Jul 21, 2025

    • introduction_to_hpc

      Public
      In this training course you will find theory and practice material for introducing yourself to the basics of high-performance computing (HPC) environment.
      GNU General Public License v3.0
      •1•0•0•0•Updated Jul 20, 2025Jul 20, 2025

    • buisciii-tools

      Public
      set of helper tools for bu-isciii management of its core services portfolio.
      portfolioservicesbioinformaticsgenomicscore-servicesbioinformatics-analysis
      Python
      •
      GNU General Public License v3.0
      •15•2•17•1•Updated Jul 18, 2025Jul 18, 2025

    • iskylims

      Public
      is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.
      ngsngs-analysisngs-dataworkflowlimsbioinformatics-analysis
      Python
      •
      GNU General Public License v3.0
      •39•75•20•2•Updated Jul 17, 2025Jul 17, 2025

    • spanish-pathogens-portal

      Public
      A minimal/example hugo site for node pathogens portal. Checkout the demo site following the URL below
      HTML
      •
      MIT License
      •5•0•1•0•Updated Jun 26, 2025Jun 26, 2025

    • BU-ISCIII

      Public
      Our Wiki and main public documentation repository.
      documentationbioinformaticsbioinformatics-unit
      9•4•2•0•Updated Jun 25, 2025Jun 25, 2025

    • introduction_to_bioinformatics

      Public
      In this training course you will find theory and practice material for introducing yourself to the basics of high throughput sequencing data analysis.
      GNU General Public License v3.0
      •6•4•2•0•Updated Jun 12, 2025Jun 12, 2025

    • pdn_priority_pathogens

      Public
      Python
      •
      MIT License
      •1•0•0•0•Updated May 28, 2025May 28, 2025

    • infectious-diseases-toolkit

      Public
      Infectious diseases toolkit
      Python
      •
      Other
      •42•1•0•0•Updated Apr 22, 2025Apr 22, 2025

    • virology_training

      Public
      This repo contains all the resources needed to follow the virology training to analyze viral sequencing data.
      HTML
      •3•4•0•0•Updated Apr 9, 2025Apr 9, 2025

    • viralrecon

      Public
      Assembly and intrahost/low-frequency variant calling for viral samples
      Nextflow
      •
      MIT License
      •133•1•0•0•Updated Apr 7, 2025Apr 7, 2025

    • pikavirus

      Public
      New pikavirus in dsl2
      Nextflow
      •
      MIT License
      •5•1•5•0•Updated Mar 26, 2025Mar 26, 2025

    • PikaVirus_OLD

      Public
      Python
      •
      MIT License
      •2•0•0•0•Updated Mar 24, 2025Mar 24, 2025

    • taranys

      Public
      cg/wgMLST allele calling software, schema evaluation and allele distance estimation for outbreak reserch.
      sequencingmlstcgmlstoutbreak-detectionbacterial-genomeswgmlstoutbreak-data-analysis
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •4•9•0•0•Updated Jan 3, 2025Jan 3, 2025

    • galaxy_virologist_training

      Public
      Galaxy training for virology profiles
      HTML
      •3•0•2•0•Updated Nov 15, 2024Nov 15, 2024

    • bacass

      Public
      Simple bacterial assembly and annotation pipeline
      Nextflow
      •
      MIT License
      •60•0•0•0•Updated Nov 6, 2024Nov 6, 2024

    • bacterial_wgs_training

      Public
      In this training course you will find theory and practice material for introducing yourself to wgs analysis for bacterial, including outbreak investigation.
      genomesequencingwgsngs-analysisoutbreak-detectionbacterial-genomesoutbreaksnextflowbacterial-wgs-trainingwgs-analysis
      HTML
      •
      GNU General Public License v3.0
      •0•4•1•0•Updated Oct 31, 2024Oct 31, 2024

    • buisciii.github.io

      Public
      BU-ISCIII team website
      SCSS
      •
      MIT License
      •2.7k•0•0•0•Updated May 20, 2024May 20, 2024

    • MPXstreveal

      Public
      Monkepox STR reveal (MPXstreveal) a new draft approach for detecting and curating low complexity regions in monkeypox genomes using massive parallel sequencing.
      Python
      •
      MIT License
      •1•2•0•0•Updated Feb 28, 2024Feb 28, 2024

    • eutils_search_cd44_paper

      Public
      This repository contains a custom python script that finds citations that include the name of a gene along with a condition provided by the user. P.e brca2+AND+(MIGRATION)
      Python
      •
      MIT License
      •0•0•0•0•Updated May 26, 2023May 26, 2023

    • nexstrain_relecov

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Feb 13, 2023Feb 13, 2023

    • cna_bacterial_wgs_training

      Public
      In this training course you will find theory and practice material for introducing yourself to wgs analysis for foodborne bacteria
      1•0•0•0•Updated Nov 8, 2022Nov 8, 2022

    • assemblybacterias

      Public
      Nextflow
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Sep 26, 2022Sep 26, 2022

    • relecov_biohackaton

      Public
      11•0•9•0•Updated Jul 21, 2022Jul 21, 2022

    • 16S-Qiime-protocol

      Public
      Pipeline del análisis comenzado el día 4 de mayo de 2021, tema: "bloqueadores"
      Python
      •1•0•0•0•Updated Jul 6, 2022Jul 6, 2022

    • relecov_qc_exercise

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Jun 20, 2022Jun 20, 2022

    • bacterial_assembly-nf

      Public
      Haploid bacterial assembly and automatic annotation implemented using Nextflow
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 19, 2022Apr 19, 2022

    • bu-hack-a-isciii

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 16, 2022Feb 16, 2022

    • markdowns

      Public
      repository with the markdowns of all of our analyses.
      Python
      •1•1•0•0•Updated Jan 18, 2022Jan 18, 2022