Explore projects
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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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Scripts, data, and results used in the Master thesis of the student Antonio Luna de Haro in Wageningen UR
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Willemsen, Johan / Happy-haplotype-assembly
GNU General Public License v3.0 onlyHappy - Haplotype assembly using Next-generation Sequencing (NGS) reads.
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Haplotype estimation tool for polyploids using NGS data of related individuals
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Family-based estimation of polyploid haplotypes using short sequence reads
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Kalverla, Peter / meteocode
BSD 3-Clause "New" or "Revised" LicenseA random collection of meteorological functions, serving mostly as an exercise in setting up a well-structured scientific coding project.
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Kautsar, Satria / BiG-SCAPE
GNU Affero General Public License v3.0Biosynthetic 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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Benden, Daniel / catchcam
GNU General Public License v2.0 or laterCatchCam is the software of the Catchcam hardware
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using jupyter notebooks and nbgrader to partially automate exercise grading for the course geoengineering, and the design of a proposal for a final exam for the course geoengineering
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Volume of each building on the campus
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Scripts used in my Master thesis project on calling homopolymers in nanopore data using neural networks.
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