References

Heumos, Lukas, Anna C. Schaar, Christopher Lance, Anastasia Litinetskaya, Felix Drost, Luke Zappia, Malte D. Lücken, et al. 2023. “Best Practices for Single-Cell Analysis Across Modalities.” Nature Reviews Genetics 24 (8): 550–72. https://doi.org/10.1038/s41576-023-00586-w.
“OP3 H5AD on S3.” 2024. https://openproblems-bio.s3.amazonaws.com/public/neurips-2023-competition/sc_counts_reannotated_with_counts.h5ad.
“Open Problems Kaggle Competition - Single Cell Perturbations.” 2023. https://www.kaggle.com/competitions/open-problems-single-cell-perturbations/overview.
“OpenProblems Perturbation Prediction Benchmark.” 2024. https://openproblems.bio/results/perturbation_prediction/.
“SRA SRP527159.” 2024. https://trace.ncbi.nlm.nih.gov/Traces/?view=study&acc=SRP527159.
Wratten, Laura, Andreas Wilm, and Jonathan Göke. 2021. “Reproducible, Scalable, and Shareable Analysis Pipelines with Bioinformatics Workflow Managers.” Nature Methods 18 (10): 1161–68. https://doi.org/10.1038/s41592-021-01254-9.
Zappia, Luke, and Fabian J. Theis. 2021. “Over 1000 Tools Reveal Trends in the Single-Cell RNA-Seq Analysis Landscape.” Genome Biology 22 (1). https://doi.org/10.1186/s13059-021-02519-4.