MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
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May 7, 2024 - R
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host-pathogen-interactions
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The DualRNASeq Pipeline is a comprehensive, automated workflow designed to analyze host-pathogen dualRNA-Seq data, offering insights into gene expression dynamics during infection. Its modular Snakemake framework ensures reproducibility, scalability, and seamless execution on local machines, HPC clusters, or cloud platforms.
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Jan 23, 2025 - Python
Previous exposure to myxomatosis reduces survival of European rabbits during outbreaks of rabbit haemorrhagic disease
australia invasive-species wildlife cmr host-pathogen biological-control disease-synergies host-pathogen-interactions wildlife-epidemiology alien-invasive-species oryctolagus-cuniculus multistate-mark-recapture-models capture-mark-recapture rhdv myxomatosis myxoma-virus invasive-species-control
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Sep 22, 2021 - R
OHPI: Ontology of Host-Pathogen Interactions
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Apr 19, 2022 - Makefile
A sophisticated bioinformatics pipeline for bacterial pangenome analysis, integrating WGS and RNA-Seq data. It enhances genome completeness with hybrid assemblies, identifies core/accessory genes, and enables pangenome-level transcriptomic profiling. Built on Snakemake, it is scalable, customizable, and optimized for strain-specific insights.
snakemake bioinformatics-pipeline rnaseq whole-genome-sequencing pangenomics host-pathogen-interactions pan-transcriptomics
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Jan 23, 2025 - Python
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