Published June 16, 2023
| Version v1.0.0
Dataset
Open
CimpleG DNAm benchmarking datasets for cell-type classification and deconvolution
Authors/Creators
- 1. Institute for Computational Genomics, Joint Research Center for Computational Biomedicine, RWTH Aachen University Medical School, 52074 Aachen, Germany
- 2. Helmholtz Institute for Biomedical Engineering, RWTH Aachen University, 52074 Aachen, Germany
Description
Two large DNAm benchmarking datasets specifically gathered and curated for cell-type classification and deconvolution problems.
It includes a leukocytes dataset and a somatic cells dataset in the GenomicRatioSet format from the minfi package.
These can be easily loaded into R with the CimpleG::load_object function.
Each dataset includes therein sample data like GEO accession numbers, sample name or ID in their original dataset, cell-type label, one-hot encoded data for each cell-type, preferred train/test splits, and others.
Notes
These datasets can and should be loaded into R with the CimpleG::load_object function
Files
CimpleG_benchmarking_datasets.zip
Additional details
Related works
- Is supplement to
- Software: 10.5281/zenodo.8045462 (DOI)
- Requires
- Software: 10.5281/zenodo.8045495 (DOI)