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@TRON-Bioinformatics

Bioinformatics Group at TRON - Translational Oncology at the Medical Center of the Johannes Gutenberg-University Mainz gGmbH

TRON is a biopharmaceutical research organization dedicated to translational research in the field of oncology. Imprint: http://tron-mainz.de/imprint/

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  1. EasyFuse EasyFuse Public

    EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.

    Python 50 13

  2. seq2HLA seq2HLA Public

    In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq format as input, uses a bowtie index comprising all HLA allel…

    Python 47 7

  3. neofox neofox Public

    Annotation of mutated peptide sequences with published or novel potential neoantigen descriptors

    Python 27 7

  4. tronflow-mutect2 tronflow-mutect2 Public

    Nextflow pipeline for Mutect2 somatic variant calling best practices

    Nextflow 21 3

  5. covigator-ngs-pipeline covigator-ngs-pipeline Public

    A Nextflow pipeline for NGS variant calling on SARS-CoV-2. From FASTQ files to normalized and annotated VCF files from GATK, BCFtools, LoFreq and iVar.

    Nextflow 18 7

  6. splice2neo splice2neo Public

    R package to analyze aberrant splicing junctions in tumor samples to identify neoepitopes

    R 13 1

Repositories

Showing 10 of 42 repositories
  • snakemake-wrappers Public Forked from snakemake/snakemake-wrappers

    This is the development home of the Snakemake wrapper repository, see

    TRON-Bioinformatics/snakemake-wrappers’s past year of commit activity
    Python 0 187 0 0 Updated Nov 14, 2024
  • EasyFuse Public

    EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.

    TRON-Bioinformatics/EasyFuse’s past year of commit activity
    Python 50 GPL-3.0 13 13 0 Updated Nov 8, 2024
  • splice2neo Public

    R package to analyze aberrant splicing junctions in tumor samples to identify neoepitopes

    TRON-Bioinformatics/splice2neo’s past year of commit activity
    R 13 1 0 0 Updated Nov 7, 2024
  • easyquant Public

    Quantification of reads at defined positions to verify custom input sequences.

    TRON-Bioinformatics/easyquant’s past year of commit activity
    Python 4 MIT 0 5 0 Updated Nov 4, 2024
  • mavis-bench Public Forked from bcgsc/mavis

    Merging, Annotation, Validation, and Illustration of Structural variants

    TRON-Bioinformatics/mavis-bench’s past year of commit activity
    Python 0 GPL-3.0 15 0 0 Updated Oct 1, 2024
  • nf-template Public template

    Nextflow template for fast pipeline generation

    TRON-Bioinformatics/nf-template’s past year of commit activity
    Nextflow 0 GPL-3.0 0 0 0 Updated Sep 25, 2024
  • covigator Public

    CoVigator - Monitoring SARS-CoV-2 mutations

    TRON-Bioinformatics/covigator’s past year of commit activity
    Python 11 MIT 1 6 3 Updated Aug 2, 2024
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

    Conda recipes for the bioconda channel.

    TRON-Bioinformatics/bioconda-recipes’s past year of commit activity
    Shell 0 MIT 3,295 0 0 Updated Aug 1, 2024
  • neofox Public

    Annotation of mutated peptide sequences with published or novel potential neoantigen descriptors

    TRON-Bioinformatics/neofox’s past year of commit activity
    Python 27 GPL-3.0 7 4 0 Updated Jul 31, 2024
  • tronflow-alignment Public

    Nextflow pipeline for BWA, BWA2 and STAR alignments

    TRON-Bioinformatics/tronflow-alignment’s past year of commit activity
    Nextflow 12 MIT 3 0 1 Updated Jul 22, 2024