Explore projects

Postprocessing --

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.

Arabidopsis eQTL analysis platform

An advanced template repository for python projects

Easily compute and visualise synteny between multiple genomes

Het MNP model zelf.

FLiTrak3D (or FLIT for “FLight Insect Tracker”) is a Python package that prepare video recordings to be used by DeepLabCut (simple 2D/3D tracking, cropping and stitching). Then use DeepLabCut to estimate the 2D coordinates of various bodyparts of a flying insect and fit a 3D skeleton to these 2D coordinates

A bunch of Python scripts used to make life easier when segmenting many callus images.

This is a git to host code and data for the MSc course Machine Learning at the Wageningen University

Project for ACT module

Calculate the diversity of your gene clusters! Using hmmscan to find the pfam domains. Jaccard, DDS, GK as distance metrics including sequence similarity as a modifier. It outputs tab delimited network files that can be visualized in Cytoscape.

NER-CNS Pipeline is the Nematology Expression RNA-seq Counts Normalization pipeline using Snakemake This repository is the RNA sequence counts/TPMs/FPKMs pipeline.

Multiple protein structure alignment and feature extraction suite

Integrate and process egapx and helixer annotation