Explore projects
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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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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 repo contains source code for the paper "Controlling bias and inflation in epigenome- and transcriptomewide association studies using the empirical null distribution" by Maarten van Iterson, Erik W. van Zwet and Bastiaan T. Heijmans.
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Scripts used for differential gene expression analysis and its reporting (currently for RNA-seq data)
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Generate and Annotate DNAse-seq footprint with Transcription factor binding sites.
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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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Functional metagenomics analysis using the HUMAnN tool version 3
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Microbiota analyses of metagenomic samples of ulcerative colitis patients and fecal microbiota transplantation donors in the FECBUD trial
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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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