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Conjugate federated analysis in R

COCOPREND: COde of COnduct for PREclinical Neuroimaging Data.

COCOPREND compiles and distills resources to facilitate responsible and ethical use, sharing and management of preclinical (animal) neuroimaging data. This data code of conduct is elaborated by the Center for Reproducible Science (CRS) of the University of Zurich. This website is meant to be a living document that is regularly edited and updated by the community.

FABRIC4 Fluids and Barriers: Imaging the Central Nervous System in 4D

R scripts, transcriptomic data links, and interactive analyses for the Toxoplasma gondii sporulation transcriptome atlas (Hehl Lab, University of Zurich, Vetsuisse Faculty). Includes variance filtering, UMAP/HDBSCAN clustering, differential expression (DEA), over-representation analysis (ORA), stage-specific heatmaps, UpSet and alluvial plots, and interactive network resources.

IMMense (IMM Extended Nextflow Sequencing Environment) is a Nextflow pipeline to analyze bacterial and fungal genomes. It covers genome assembly and annotation, species identification, resistance and virulence gene analysis as well as specific modules for selected species. The pipeline's strenghts are reproducible results by using singularity containers and a thorough quality control. IMMense can be deployed single machines as well as HPC clusters.