Explore projects

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)

CIHEAM course material

A random collection of meteorological functions, serving mostly as an exercise in setting up a well-structured scientific coding project.

Family-based estimation of polyploid haplotypes using short sequence reads

Haplotype estimation tool for polyploids using NGS data of related individuals

Happy - Haplotype assembly using Next-generation Sequencing (NGS) reads.

Scripts, data, and results used in the Master thesis of the student Antonio Luna de Haro in Wageningen UR

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.

A convolutional neural network for the purpose of interpretable protein-protein interaction prediction.

Find SNPs in putative TFBS that change the expression of the nearby gene

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.