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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 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 42 4

  2. Gigwa2 Gigwa2 Public

    JavaScript 9 8

  3. tutorials 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 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 culebrONT Public archive

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

    Python 36 8

  6. rap-green rap-green Public

    Phylogenetic tree management, exploration and display package

    PHP 6 5

Repositories

Showing 10 of 50 repositories
  • Gigwa2 Public
    SouthGreenPlatform/Gigwa2’s past year of commit activity
    JavaScript 9 AGPL-3.0 8 15 4 Updated Jul 22, 2024
  • SynFlow Public
    SouthGreenPlatform/SynFlow’s past year of commit activity
    JavaScript 0 GPL-3.0 0 0 0 Updated Jul 19, 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.

    SouthGreenPlatform/AgroLD_webapp’s past year of commit activity
    JavaScript 8 GPL-3.0 2 17 7 Updated Jul 16, 2024
  • PanExplorer Public

    Web application to explore bacterial pangenomes

    SouthGreenPlatform/PanExplorer’s past year of commit activity
    HTML 6 GPL-3.0 1 1 0 Updated Jul 5, 2024
  • AgroLD_ETL Public

    AgroLD is a RDF knowledge base that consists of data integrated from a variety of plant resources and ontologies. AgroLD ETL is the Python packages developed to transform plant datasets in RDF. Packages are developped for data standards such as GFF,GAF, VCF and specific plant databases.

    SouthGreenPlatform/AgroLD_ETL’s past year of commit activity
    Python 1 GPL-3.0 1 40 0 Updated Jun 19, 2024
  • training_SV_teaching Public

    Training Detection of SNP and Structural Variants using short and long reads

    SouthGreenPlatform/training_SV_teaching’s past year of commit activity
    0 0 0 0 Updated Jun 9, 2024
  • PanExplorer_workflow Public

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

    SouthGreenPlatform/PanExplorer_workflow’s past year of commit activity
    Perl 3 GPL-3.0 2 1 0 Updated May 22, 2024
  • staff-info Public

    Interactive SouthGreen Staff Information page

    SouthGreenPlatform/staff-info’s past year of commit activity
    TeX 1 LGPL-3.0 2 0 0 Updated May 16, 2024
  • documentation Public

    Documentation related to the SouthGreen Platform - https://southgreenplatform.github.io/documentation/

    SouthGreenPlatform/documentation’s past year of commit activity
    1 CC-BY-4.0 0 0 0 Updated Mar 27, 2024
  • VcfHunter Public

    VcfExplorer regroups several programs which principal aims are to map DNA and RNAseq data onto reference genome sequence, perform variant calling, manipulate vcf files, perform chromosome painting of accessions based on the contribution of ancestral groups, select marker for genetic map analysis and perform pairwise chromosome linkage of ordered…

    SouthGreenPlatform/VcfHunter’s past year of commit activity
    Python 9 GPL-3.0 6 4 0 Updated Mar 26, 2024

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