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)

Basic tips for Git and GitLab

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.

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.

Python models and scripts used for analysing geospatial data for the 'Natuurrapportage 2019' for the province of Zeeland. Made by Hans Roelofsen, team Biodiversiteit & Beleid, Wageningen Environmental Research

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.

Multiple protein structure alignment and feature extraction suite

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

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)

CatchCam is the software of the Catchcam hardware