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Simulation pipeline for generation of artificial polyploid genomes, estimation of their haplotypes from Next Generation Sequencing data using HapTree, HapCompass and SDhap, and finally evaluation of the estimation accuracy.
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Visualize genes in a GenBank file as arrows in SVG format.
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Simulation pipeline for generation of artificial polyploid genomes, estimation of their haplotypes from Next Generation Sequencing data using HapTree, HapCompass and SDhap, and finally evaluation of the estimation accuracy.
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Biosynthetic Genes Similarity Clustering and Prospecting Engine.
Defines a distance metric between Gene Clusters using a combination of three indices (Jaccard index, a modified Domain Duplicate Score and the Goodman-Kruskal gamma function)
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A script for retrieval of SMILES chemical data of compounds produced by Biosynthetic Gene Clusters. Data is gathered from the MIBiG repository (single package with all entries in JSON format)
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Scripts and resources used for my MSc Thesis at the Bioinformatics chair group.
The goal this project is to create a pipeline that automates the secondary metabolite phylogenetic analysis of fungi to a certain extent.
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A concept for a BrAPI discovery node. Written in Python, Flask-based.
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