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@SouthGreenPlatform

South Green Bioinformatics platform

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

Pinned

  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

9 results for all repositories written in Python sorted by last updated
Showing 9 of 9 repositories
  • 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.

    Python 1 GPL-3.0 1 40 0 Updated Apr 25, 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…

    Python 9 GPL-3.0 6 4 0 Updated Mar 26, 2024
  • culebrONT Public archive

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

    Python 36 GPL-3.0 8 1 0 Updated Jan 31, 2024
  • training_reproducible_research Public

    Training on Tools for Reproducible Research given by SouthGreen

    Python 3 CC-BY-4.0 3 6 0 Updated Jun 15, 2023
  • galaxy-wrappers Public

    Galaxy tools from South Green

    Python 4 3 0 1 Updated Dec 5, 2022
  • scaffhunter Public

    Tools to order scaffolds into chromosomes based on genetic mapping data

    Python 2 GPL-3.0 0 0 0 Updated Nov 29, 2022
  • scaffremodler Public

    Tools to correct genome assembly using NGS data

    Python 3 GPL-3.0 0 0 0 Updated Nov 29, 2022
  • sugarcane-origins Public

    Scripts used to determine the origin of SNPs in the publication 'Three founding ancestral genomes involved in the origin of sugarcane'.

    Python 0 1 0 0 Updated Apr 7, 2021
  • Python 5 GPL-3.0 1 3 0 Updated Jun 8, 2018

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