GitLab

Starting point for information about the Openshift Container Platform

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)

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.

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.

Multiple protein structure alignment and feature extraction suite

This is an adaptation of CloudSPAdes which uses taxonomical annotation of reads additionally to linked reads.

EleQTL (WormQTL2) dataset preparation scripts

Basic tips for Git and GitLab

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

PanTools, WUR Bioinformatics

Several data files associated with the analysis of SMILES strings from the MIBiG database