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R scripts that could be useful for analysis in RP3. For example, extracting information from the metaDb, calculating GC content and length based on the exons files, RNAseq normalization e.g. cqn, ...
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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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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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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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