Explore projects
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Analyses of antimicrobial resistance genes in metagenomic data from patients with (multiple) recurrent Clostridioides difficile infections and their faecal microbiota transplantation donors - with culture data from multidrug resistant organisms
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Data analysis tools for Next Generation Sequencing of forensic DNA markers, including tools for characterisation and filtering of PCR stutter artefacts and other systemic noise, and for automatic detection of the alleles in a sample.
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Engraftment calculations based on One Codex species-level taxonomic classifications of shotgun metagenomic read sets of the FECBUD trial - a collaboration between the Netherlands Donor Feces Bank and Vedanta Biosciences.
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Analysis scripts used to analyse the procarcinogenic pks gene island in metagenomes of multiple recurrent Clostridioides difficile infected patients and their corresponding healthy donors from the Netherlands Donor Feces Bank.
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Scripts used for differential gene expression analysis and its reporting (currently for RNA-seq data)
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A web interface to the Varda database for genomic variation frequencies
This project is a fork of https://github.com/varda/aule.git
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This pipeline takes paired-end fastq files, does a quick genome assembly on them (via Velvet + kmergenie), and predicts antibiotic resistance via abricate.
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