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@B-UMMI

Bioinformatics @ Molecular Microbiology and Infection Unit

Script repository

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  1. chewBBACA chewBBACA Public

    BSR-Based Allele Calling Algorithm

    HTML 137 28

  2. long-read-catalog long-read-catalog Public

    catalog for long-read sequencing tools

    32 11

  3. INNUca INNUca Public

    INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search

    Python 13 7

  4. LMAS LMAS Public

    LMAS - Last (Meta)Genomic Assembler Standing

    Python 10 2

  5. ReMatCh ReMatCh Public

    Reads mapping against target sequences, checking mapping and consensus sequences production

    C 8 6

  6. chewBBACA_tutorial chewBBACA_tutorial Public

    Step by step tutorial using chewBBACA with all necessary files and results

    HTML 7 1

Repositories

Showing 10 of 34 repositories
  • Schema_Refinery Public

    Set of scripts and instructions to refine wg/cgMLST schemas.

    B-UMMI/Schema_Refinery’s past year of commit activity
    Python 3 1 0 0 Updated Dec 11, 2024
  • chewBBACA Public

    BSR-Based Allele Calling Algorithm

    B-UMMI/chewBBACA’s past year of commit activity
    HTML 137 GPL-3.0 28 17 2 Updated Nov 5, 2024
  • ENA_microbial_submission Public

    Set of scripts and instructions to upload sequencing reads to the ENA.

    B-UMMI/ENA_microbial_submission’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Aug 2, 2024
  • proBait Public Forked from rfm-targa/proBait

    Generate target-enrichment baits from a set of genome assemblies.

    B-UMMI/proBait’s past year of commit activity
    Python 0 GPL-3.0 1 0 0 Updated May 20, 2024
  • Chewie-NS Public

    chewBBACA Nomenclature Server

    B-UMMI/Chewie-NS’s past year of commit activity
    Python 7 GPL-3.0 1 0 13 Updated Nov 3, 2023
  • docker-images Public

    Repository of Docker images created by UMMI

    B-UMMI/docker-images’s past year of commit activity
    Dockerfile 5 1 0 3 Updated Sep 29, 2023
  • seq_typing Public

    Determine which reference sequence is more likely to be present in a given sample

    B-UMMI/seq_typing’s past year of commit activity
    Python 5 GPL-3.0 4 2 0 Updated Aug 21, 2023
  • DEN-IM Public

    Dengue virus genotyping from shotgun and targeted metagenomics​ - A nextflow pipeline

    B-UMMI/DEN-IM’s past year of commit activity
    Python 7 GPL-3.0 5 3 0 Updated Apr 20, 2023
  • long-read-catalog Public

    catalog for long-read sequencing tools

    B-UMMI/long-read-catalog’s past year of commit activity
    32 11 0 0 Updated Feb 14, 2023
  • B-UMMI/Chewie-NS_tutorial’s past year of commit activity
    Python 0 GPL-3.0 0 0 3 Updated Feb 2, 2023

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