PanTools, WUR Bioinformatics

This repository contains a couple of scripts to make living with the WUR git repo a bit easier. Feel free to add code, by forking, coding and creating a merge request.

Biosynthetic Genes Similarity Clustering and Prospecting Engine.

Defines a distance metric between Gene Clusters using a combination of three indices (Jaccard Index of domain types, Domain Sequence Similarity the Adjacency Index)

Repository for Python raster GIS library with low memory requirements

CNN methods that estimate the diameter of the crop, even when it's occluded.

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.

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)

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.

EleQTL (WormQTL2) dataset preparation scripts

Basic RMarkdown/hugo website for the Open Science Community Wageningen (OSC-W) using GitLab Pages.

video machinelearning using yolov3 on windows 10

Template for WUR beamer presentations, based on http://www.petervanbeveren.eu/latex/

Generic project for public access containers