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@FOI-Bioinformatics

FOI-Bioinformatics

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  1. flextaxd flextaxd Public

    FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

    Python 65 8

  2. nanometa_live nanometa_live Public

    A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineered for precision, speed, and user-friendliness, with offline …

    Python 16 3

  3. CanSNPer2 CanSNPer2 Public

    CanSNPer2: A toolkit for SNP-typing bacterial genomes.

    Python 6 2

  4. STARPS STARPS Public

    A simulation tool for cultivation of bacterial populations

    C 1

  5. cansnper1.1 cansnper1.1 Public

    CanSNPer1.1: A toolkit for SNP-typing using NGS data. Copyright (C) 2016 Adrian Lärkeryd Updates done by David Sundell VERSION 1.1.0 (Adjusted to python 3, python 2 support is depricated) This prog…

    Python 1

  6. repgenr repgenr Public

    RepGenR (Representative-Genome Repositories) clusters genome sequences based on average nucleotide identity to produce flexible databases

    Python 1 1

Repositories

Showing 10 of 16 repositories
  • repgenr Public

    RepGenR (Representative-Genome Repositories) clusters genome sequences based on average nucleotide identity to produce flexible databases

    Python 1 1 0 0 Updated Apr 4, 2025
  • flexmetr Public

    FlexMetR (Flexible Metadata Resources) lets you add metadata to accession numbers or custom identifiers.

    Python 0 0 0 0 Updated Mar 31, 2025
  • metaquest Public

    MetaQuest is a robust and user-friendly command-line toolkit designed to simplify and streamline the analysis of metagenomic data. From summarizing the presence of specific genomes to visualizing complex datasets, MetaQuest offers an array of tools to help researchers uncover insights from their metagenomic datasets.

    Python 1 GPL-3.0 0 0 0 Updated Mar 23, 2025
  • flextaxd Public

    FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

    Python 65 GPL-3.0 8 2 0 Updated Mar 12, 2025
  • baitUtils Public

    baitUtils is a comprehensive toolkit for the analysis and visualization of bait sequences used in in-solution hybridization

    Python 0 MIT 0 0 0 Updated Jan 28, 2025
  • preprimer Public

    Prepare primers from different formats, i.e. schemes for tiled sequencing from varvamp to artic format. Also prepares and aligns primers with mepcr or exonerate.

    Python 0 GPL-3.0 0 0 0 Updated Dec 10, 2024
  • CanSNPer2-data Public

    Repository for the CanSNP database contaning the source tree from CanSNPer version 2 and later

    0 0 0 0 Updated Oct 11, 2024
  • nanometa_live Public

    A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineered for precision, speed, and user-friendliness, with offline functionality post-initialization.

    Python 16 GPL-3.0 3 1 0 Updated Oct 4, 2024
  • CanSNPer2 Public

    CanSNPer2: A toolkit for SNP-typing bacterial genomes.

    Python 6 GPL-3.0 2 22 0 Updated Jan 17, 2024
  • useful-scripts Public

    A collection of useful scripts

    Perl 0 0 0 0 Updated Dec 8, 2021
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