Nextflow pipeline for Mutect2 somatic variant calling best practices
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Jun 14, 2024 - Nextflow
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mutect2
Here are 12 public repositories matching this topic...
GATK 4 Mutect2 Somático
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Nov 29, 2025 - Shell
This repository will house the scripts used to analyze and represent genomic and temperature data for my dissertation.
ggplot2 bioinformatics snps scripts awk temperature bioinformatics-pipeline samtools bwa-mem bash-scripting snvs awk-script mutect2 mitochondria mitochondrial-variants mitochondrial-genomes
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Oct 2, 2022 - Shell
Snakemake workflow used to call germline and/or somatic variants with GATK Mutect2
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Mar 17, 2025 - Python
A Snakemake pipeline for copy number variant calling without normal tissue samples
bioinformatics snakemake conda cnv bwa panels cna mutect2 targeted-sequencing sequencing-data cnvkit copynumbervariation purecn
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Jul 31, 2025 - Python
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Mar 17, 2017 - R
Immunopeptidogenomics — cryptic peptide database construction from RNA-seq. An nf-core-style port of the 31-step IPG pipeline (Scull et al. Mol Cell Proteomics 2021), built for the Li and Purcell Labs at Monash University.
bioinformatics nextflow reproducible-research monash-university rnaseq pixi mhc mass-spectrometry hla cancer-research mutect2 stringtie nf-core cancer-immunotherapy gatk4 neoantigens star-aligner immunopeptidomics immunopeptidogenomics cryptic-peptides
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Apr 9, 2026 - Nextflow
demo pipeline for testing different data chunking methods for MuTect2
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Jul 2, 2019 - Nextflow
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