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1. TRON-Bioinformatics/neofox TRON-Bioinformatics/neofox Public

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

   Python 34 6

2. TRON-Bioinformatics/covigator TRON-Bioinformatics/covigator Public

   CoVigator - Monitoring SARS-CoV-2 mutations

   Python 11 1

3. TRON-Bioinformatics/tronflow-mutect2 TRON-Bioinformatics/tronflow-mutect2 Public

   Nextflow pipeline for Mutect2 somatic variant calling best practices

   Nextflow 23 4

4. TRON-Bioinformatics/covigator-ngs-pipeline TRON-Bioinformatics/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 20 8

5. TRON-Bioinformatics/vafator TRON-Bioinformatics/vafator Public

   Annotate variants in a VCF file with technical annotations from one or more BAMs

   Jupyter Notebook 10

6. TRON-Bioinformatics/omicron-analysis TRON-Bioinformatics/omicron-analysis Public

   Analysis code, data and figures on the omicron MHC binding paper

   Jupyter Notebook 2 1