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This repository is meant to show the R scripts that were written by Group 4 for the project of Spatial and Temporal Modelling at Wageningen University & Research. The input data for the scripts is not provided in this repository.
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My take on how I would design the RNA-seq pipeline and differential gene expression analysis.
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transcriptional timeseries experiment on the NIH project with the Kammenga and Bettinger Lab
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WBVR_PathogenOmics / Rational_designed_microbiome
GNU General Public License v3.0 or laterSeries of scripts developed part of the Rationally designed microbiomes project.
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A pipeline for mapping loss-of-function mutations induced by EMS mutagenesis.
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Helfenstein, Anatol / BIS-4D_masterclass
Creative Commons Attribution 4.0 InternationalBIS-4D model workflows, tutorials and demonstrations for masterclass at 2023 Wageningen Soil Conference
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Hartanto, Margi / eQTG-Finder
GNU General Public License v3.0 or laterUpdated -
Janssen, Zina / Map differences training data
GNU Affero General Public License v3.0Updated -
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Repository of code belonging to the wastewater fingerprinting paper: Fingerprinting toxic potencies in wastewater using gene expression profiling in C. elegans as a bioanalytical tool.
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APS / FOODSOM Public
GNU General Public License v3.0 or laterFOODSOM: food system optimisation model
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