clustification: Benchmark clf-based clustering approach

[sreichl]

look for clustering benchmark datasets (from various domains) to test the approach and put the result into the documentation) → Clustering benchmark papers

[sreichl]

• Example data (requirement: high dimensional with more metadata)
  • digits toy data
  • PBMC3k pre processed single cell data with annotations from 10x genomics
  • ...

[sreichl]

check if scRNA-seq data from SCCAF Teichmann paper works: https://www.nature.com/articles/s41592-020-0825-9 specifically their benchmarking data: https://github.com/SCCAF/sccaf_example

[sreichl]

cellxgene: https://cellxgene.cziscience.com/ HCA Data portal: https://data.humancellatlas.org/

[sreichl]

Start "easy" with a small and a large PBMC data set i.e., very clearly defined "ground truth"

[sreichl]

compare to their scRNA-seq specific clustering approach (quite similar ie iterative RFs) https://www.biorxiv.org/content/10.1101/2024.01.18.576317v1.full