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@medvir Institute of Medical Virology

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    27 repositories

    • VirMet

      Public
      Set of tools for viral metagenomics.
      bioinformaticsbioinformatics-pipelinepythondatabasegenomencbimiseqviral-databaseviral-metagenomicsbacterial-database
      Python
      •5•13•6•0•Updated Sep 16, 2025Sep 16, 2025

    • Coverage

      Public
      R
      •0•0•0•0•Updated Aug 14, 2025Aug 14, 2025

    • DMS

      Public
      Infos and scripts for Data Management of Sequencing Data at the IMV
      Python
      •
      MIT License
      •1•1•3•0•Updated Aug 12, 2025Aug 12, 2025

    • SmaltAlign

      Public
      Quick iterative alignment of reads against a given reference using smalt.
      Shell
      •
      MIT License
      •1•3•6•0•Updated Jul 17, 2025Jul 17, 2025

    • DiaMet

      Public
      Python
      •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

    • v3seq

      Public
      V3 loop from sequencing data
      Python
      •0•0•2•0•Updated Jun 19, 2025Jun 19, 2025

    • multi-specificity

      Public
      Scripts for antibody sequence analysis for the multi-specificity paper
      Python
      •0•0•0•0•Updated Jun 16, 2025Jun 16, 2025

    • MinVar

      Public
      A tool to detect minority variants in HIV-1 and HCV populations
      Python
      •
      Other
      •6•1•8•0•Updated Jun 11, 2025Jun 11, 2025

    • NanoporeMet

      Public
      Python
      •0•0•0•0•Updated Mar 11, 2025Mar 11, 2025

    • ONT_amplicon

      Public
      create consensus sequence from Oxford Nanopore Technologies (ONT) amplicon sequencing
      Python
      •0•0•0•0•Updated Feb 14, 2024Feb 14, 2024

    • miseq-maintenance-status

      Public
      Provides an overview over the current maintenance status of an Illumina MiSeq sequencer
      Python
      •
      MIT License
      •1•0•0•0•Updated Feb 13, 2024Feb 13, 2024

    • ptmismatch

      Public
      Examination of Primer-Template Mismatches
      R
      •
      Other
      •0•0•0•0•Updated Mar 6, 2023Mar 6, 2023

    • runControl

      Public
      Python
      •
      MIT License
      •1•0•0•0•Updated Dec 8, 2022Dec 8, 2022

    • covid_spike_lineage

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated May 19, 2021May 19, 2021

    • Utility2MOLIS

      Public archive
      Shiny app which takes the export of an SARS-CoV-2 E-Gen Cobas Utility run and returns a readable pdf report.
      R
      •
      MIT License
      •0•0•0•0•Updated Oct 27, 2020Oct 27, 2020

    • EnvSeq

      Public
      Fully automated HIV-1 env plasmid sequencing analysis
      Python
      •
      GNU General Public License v2.0
      •1•1•0•0•Updated Jun 16, 2020Jun 16, 2020

    • variant-calling

      Public
      computes all variants including indels from Illumina sequences compared to a reference sequence
      Python
      •
      MIT License
      •1•0•0•0•Updated Sep 11, 2019Sep 11, 2019

    • virome-protocols

      Public
      version controlled protocols for virome sequencing
      0•1•0•0•Updated Mar 5, 2019Mar 5, 2019

    • ECBC

      Public
      Subtype assignment and primer (constant region) trimming for antibody sequences with Error Correcting BarCodes
      R
      •
      MIT License
      •1•0•0•0•Updated Dec 24, 2018Dec 24, 2018

    • sc-ansible

      Public
      Ansible playbook to configure instance on Science Cloud.
      Shell
      •0•0•0•0•Updated Oct 4, 2018Oct 4, 2018

    • sc-setup

      Public
      Configuration scripts for ScienceCloud
      Shell
      •0•0•0•0•Updated Sep 28, 2018Sep 28, 2018

    • miseq-qc

      Public archive
      Different tools and scripts to trace quality of Illumina MiSeq runs
      Python
      •
      MIT License
      •0•1•0•0•Updated Jan 29, 2018Jan 29, 2018

    • commap

      Public
      DMS analysis of envelope ligands
      Jupyter Notebook
      •0•0•0•0•Updated Sep 27, 2017Sep 27, 2017

    • GermAb

      Public
      Pipeline to analyse germline antibody sequences
      R
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Jul 11, 2017Jul 11, 2017

    • HCV_Sanger_Validation

      Public
      HCV_Sanger_Validation
      R
      •0•0•0•0•Updated Mar 28, 2017Mar 28, 2017

    • neomerger

      Public archive
      Python
      •0•0•0•0•Updated Feb 9, 2017Feb 9, 2017

    • DataSharingPolicy

      Public
      Adapted from Jeff Leek's guide "How to share data with a statistician"
      JavaScript
      •1•0•0•0•Updated Jan 16, 2014Jan 16, 2014