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@SouthGreenPlatform

South Green Bioinformatics platform

Public repository of code for bioinformatics applications developed in the South Green Bioinformatics platform

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  1. panache Public

    Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence information of pangenomic blocks of sequence or genes in a browser-…

    Vue 44 4

  2. Gigwa2 Public

    JavaScript 9 8

  3. tutorials Public

    An open resource material for people who wish to know about bioinformatics specially users of the Southgreen Platform (https://southgreenplatform.github.io/tutorials/). It contains tips, tutorials …

    4 4

  4. trainings Public

    The South Green platform has conducted a series of training courses for several years and this github repository gives access to all trainings (https://southgreenplatform.github.io/trainings/).

    9 11

  5. culebrONT Public archive

    A snakemake pipeline to assembly, polishing, correction and quality check from Oxford nanopore reads.

    Python 36 8

  6. rap-green Public

    Phylogenetic tree management, exploration and display package

    PHP 6 4

Repositories

Showing 10 of 51 repositories
  • SynFlow Public
    JavaScript 0 GPL-3.0 0 0 0 Updated Mar 19, 2025
  • PanExplorer_workflow Public

    Snakemake worklow for bacterial pan-genome analysis. It can be run in the back-end of PanExplorer web application

    Perl 5 GPL-3.0 2 1 0 Updated Mar 16, 2025
  • PanExplorer Public

    Web application to explore bacterial pangenomes

    HTML 7 GPL-3.0 1 1 0 Updated Mar 13, 2025
  • GeMo Public

    A mosaic genome painting tool for plant genomes

    JavaScript 15 GPL-3.0 1 7 0 Updated Mar 4, 2025
  • Gigwa2 Public
    JavaScript 9 AGPL-3.0 8 17 4 Updated Feb 25, 2025
  • rap-green Public

    Phylogenetic tree management, exploration and display package

    PHP 6 GPL-3.0 4 0 0 Updated Jan 23, 2025
  • genoring Public

    The GenoRing platform is a platform for easily deploying biological data websites.

    0 MIT 1 0 0 Updated Dec 27, 2024
  • PyRice Public

    PyRice is an API to access some Rice public databases at the same time with consistent output. PyRice design is modular and implements a smart query system which fits the computing resources to optimize the query speed.

    Jupyter Notebook 12 MIT 1 7 3 Updated Dec 12, 2024
  • training_advanced_linux_and_bash_initiation Public

    (https://southgreenplatform.github.io/training_advanced_linux_and_bash_initiation)

    1 0 0 0 Updated Nov 18, 2024
  • AgroLD_webapp Public

    AgroLD is a RDF knowledge base that consists of data integrated from a variety of plant resources and ontologies. The aim of the Agronomic Linked Data (AgroLD) project is to provide a portal for bioinformatics and domain experts to exploit the homogenized data models towards efficiently generating research hypotheses.

    JavaScript 9 GPL-3.0 2 17 7 Updated Sep 27, 2024
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