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@WesterdijkInstitute

Westerdijk Fungal Biodiversity Institute

The Westerdijk Institute (WI)'s GitHub is a collection of various tools and pipelines developed by the scientific staff and students working at WI.

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  1. FNP_aux_scripts FNP_aux_scripts Public

    Small scripts to help with fungal biosynthetic gene cluster mining

    Python 5 3

  2. ArboPhyl ArboPhyl Public

    BUSCO based phylogenetics pipeline

    Python 3

  3. TeloVision TeloVision Public

    Determine presence of telomeres and visualise genome assembly scaffolds.

    Python 2

  4. MycoCosm_genome_downloader MycoCosm_genome_downloader Public

    Tool to download fungal genomes (fasta + gff) files from JGI's MycoCosm

    Python 1 1

  5. SNPanalysis SNPanalysis Public

    Forked from vuthuyduong/SNPanalysis

    This pipeline is to generate a VCF file for a set of genomes, compared with a reference genome, developed by Duong Vu.

    Python 1

  6. dnabarcoder dnabarcoder Public

    Forked from vuthuyduong/dnabarcoder

    dnabarcoder: a tool for eDNA identification

    Python 1

Repositories

Showing 10 of 11 repositories
  • MycoCosm_genome_downloader Public

    Tool to download fungal genomes (fasta + gff) files from JGI's MycoCosm

    WesterdijkInstitute/MycoCosm_genome_downloader’s past year of commit activity
    Python 1 AGPL-3.0 1 0 0 Updated Oct 22, 2024
  • BUSCO-fungal-phylogenomics Public

    Scripts to make a phylogenomic analysis using BUSCO

    WesterdijkInstitute/BUSCO-fungal-phylogenomics’s past year of commit activity
    Python 0 0 1 0 Updated Oct 6, 2024
  • HighGene Public

    Highlight gene content variations

    WesterdijkInstitute/HighGene’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Sep 19, 2024
  • dAImos Public

    A deep learning approach for the identification of microsatellites in genome assemblies

    WesterdijkInstitute/dAImos’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Jul 10, 2024
  • TeloVision Public

    Determine presence of telomeres and visualise genome assembly scaffolds.

    WesterdijkInstitute/TeloVision’s past year of commit activity
    Python 2 GPL-3.0 0 0 0 Updated Apr 19, 2024
  • ArboPhyl Public

    BUSCO based phylogenetics pipeline

    WesterdijkInstitute/ArboPhyl’s past year of commit activity
    Python 3 MIT 0 0 0 Updated Mar 22, 2024
  • dnabarcoder Public Forked from vuthuyduong/dnabarcoder

    dnabarcoder: a tool for eDNA identification

    WesterdijkInstitute/dnabarcoder’s past year of commit activity
    Python 1 Apache-2.0 5 0 0 Updated Jan 29, 2024
  • SNPanalysis Public Forked from vuthuyduong/SNPanalysis

    This pipeline is to generate a VCF file for a set of genomes, compared with a reference genome, developed by Duong Vu.

    WesterdijkInstitute/SNPanalysis’s past year of commit activity
    Python 1 Apache-2.0 2 0 0 Updated Aug 15, 2023
  • FNP_aux_scripts Public

    Small scripts to help with fungal biosynthetic gene cluster mining

    WesterdijkInstitute/FNP_aux_scripts’s past year of commit activity
    Python 5 MIT 3 0 0 Updated Nov 30, 2022
  • BGClib Public

    BGC Toolkit and BGClib: tools for handling protein domains from GenBank files, mainly for biosynthetic gene cluster analysis

    WesterdijkInstitute/BGClib’s past year of commit activity
    Python 0 AGPL-3.0 0 0 0 Updated May 30, 2022
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