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Netherlands Institute of Ecology (NIOO-KNAW)

Netherlands Institute of Ecology (NIOO-KNAW)

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  1. cloud-genomics cloud-genomics Public

    Python 2 2

  2. epiGBS2 epiGBS2 Public

    This is the epiGBS2 snakemake pipeline as published in a preprint version.

    Python 2 6

  3. hydra hydra Public archive

    Pipeline for amplicon sequencing projects. OTUs can be build with various methods (usearch,vsearch,uparse,swarm) and classified using the RDP Classifier and SINA. Final output is a BIOM file for do…

    Python 1

  4. PhyloProfiler PhyloProfiler Public

  5. epiGBS-pipeline epiGBS-pipeline Public

    modified clone from https://github.com/thomasvangurp/epiGBS. Added wrapper scripts and conda compatibility

    Python

  6. epiGBS epiGBS Public

    R

Repositories

Showing 10 of 13 repositories
  • epiGBS2 Public

    This is the epiGBS2 snakemake pipeline as published in a preprint version.

    nioo-knaw/epiGBS2’s past year of commit activity
    Python 2 MIT 6 9 1 Updated May 15, 2024
  • hydra Public archive

    Pipeline for amplicon sequencing projects. OTUs can be build with various methods (usearch,vsearch,uparse,swarm) and classified using the RDP Classifier and SINA. Final output is a BIOM file for downstream processing (Phyloseq/R)

    nioo-knaw/hydra’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Dec 18, 2023
  • orochi Public archive
    nioo-knaw/orochi’s past year of commit activity
    Python 0 GPL-3.0 1 0 0 Updated Dec 18, 2023
  • PhyloFunDB Public
    nioo-knaw/PhyloFunDB’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated May 24, 2022
  • BSAnalyser Public

    BSAnalyser is a pipeline designed to benchmark multiple BS aligners and SNP callers from raw BS sequencing data input. It will align sequences using the chosen aligners and call SNPs using the chosen SNP calling tools for each aligner used.

    nioo-knaw/BSAnalyser’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Jul 27, 2020
  • HFC-permutation Public Forked from FleurGaBru/HFC-permutation

    pipeline for HFC calculations from ped and map file, including permutations

    nioo-knaw/HFC-permutation’s past year of commit activity
    Shell 0 MIT 1 0 0 Updated Jul 24, 2020
  • QC-NGS Public

    This tutorial will guide you through the process of generating and reading a QC report.

    nioo-knaw/QC-NGS’s past year of commit activity
    HTML 0 1 0 0 Updated Jun 3, 2019
  • 2019-02-05-wageningen-genomics Public
    nioo-knaw/2019-02-05-wageningen-genomics’s past year of commit activity
    Python 0 2 0 0 Updated Feb 4, 2019
  • cloud-genomics Public
    nioo-knaw/cloud-genomics’s past year of commit activity
    Python 2 2 0 0 Updated Jan 30, 2019
  • wrangling-genomics Public
    nioo-knaw/wrangling-genomics’s past year of commit activity
    HTML 0 0 0 0 Updated Jan 29, 2019
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