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Starting point for information about the Openshift Container Platform
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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)
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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.
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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)
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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.
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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.
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Multiple protein structure alignment and feature extraction suite
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This is an adaptation of CloudSPAdes which uses taxonomical annotation of reads additionally to linked reads.
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EleQTL (WormQTL2) dataset preparation scripts
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Basic tips for Git and GitLab
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CNN methods that estimate the diameter of the crop, even when it's occluded.
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PanTools, WUR Bioinformatics
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Several data files associated with the analysis of SMILES strings from the MIBiG database