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ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.
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vHRR: co-expression based gene function prediction
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xTrait: interactive exploration of orthology relationships and functional data
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Project has moved back to https://github.com/timdiels/CoExpNetViz
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Cytoscape App for the Jesse graphlet counting algorithm https://github.com/biointec/jesse
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Cytoscape App for the ISMAGS motif detection algorithm
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Documentation website for abb deployed at: https://bedro.pages.psb.ugent.be/abb-website
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If you have a list of genes that you would like to extract from a fasta file, this tool might help.
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Collaboration with Microbiology group to evaluate peptides for antimicrobial activity. Script here is for cutting protein sequences into k mers
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Interactive figure generator for clustered expression data
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Genome analysis pipeline on midas
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PRocessor of RNA-Sequencing Experiments
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This project contains all scripts that I used for re-mapping the motifs using different mappers. Later comparison was done between different mappers by overlapping them with experimental ChIP-Seq data to see which mappers work best!
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Utilities and CLI for MORPH bulk runs
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Scripts for paper: Network motif modules in integrated gene regulatory networks of worm and plant
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Client APIs for PLAZA API (http://bioinformatics.psb.ugent.be/plaza/documentation/api)
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An R-script covering the different steps of quantitative microbiome profiling (QMP) as described in the article 'Count your blessings: quantitative gut microbiome profiling'