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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/

Popular repositories

  1. EasyFuse EasyFuse Public

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

    Python 45 12

  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 44 7

  3. neofox neofox Public

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

    Python 25 5

  4. tronflow-mutect2 tronflow-mutect2 Public

    Nextflow pipeline for Mutect2 somatic variant calling best practices

    Nextflow 19 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 17 7

  6. tronflow-alignment tronflow-alignment Public

    Nextflow pipeline for BWA, BWA2 and STAR alignments

    Nextflow 11 2

Repositories

Showing 10 of 39 repositories
  • tronflow-alignment Public

    Nextflow pipeline for BWA, BWA2 and STAR alignments

    Nextflow 11 MIT 2 0 0 Updated May 24, 2024
  • covigator Public

    CoVigator - Monitoring SARS-CoV-2 mutations

    Python 11 MIT 1 6 3 Updated May 21, 2024
  • easyquant Public

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

    Python 3 MIT 0 2 0 Updated Apr 29, 2024
  • curahack Public
    0 MIT 0 0 0 Updated Apr 25, 2024
  • env2sif Public

    Python script for creating and editing Singularity images on a HPC servers without sudo rights.

    Python 0 0 0 0 Updated Apr 11, 2024
  • EasyFuse Public

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

    Python 45 GPL-3.0 12 12 0 Updated Apr 4, 2024
  • tronflow-mutect2 Public

    Nextflow pipeline for Mutect2 somatic variant calling best practices

    Nextflow 19 MIT 3 2 2 Updated Mar 26, 2024
  • tronflow-hla-hd Public

    A Nextflow workflow for HLA typing using HLA-HD

    Nextflow 4 MIT 0 0 0 Updated Mar 25, 2024
  • splice2neo Public

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

    R 10 1 0 0 Updated Mar 24, 2024
  • splicing_manuscript_scripts Public

    Scripts related to the manuscript "Prediction of tumor-specific splicing from somatic mutations as a source of neoantigen candidates"

    Shell 1 MIT 0 0 0 Updated Mar 21, 2024

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