Datasets

datasets.bone_marrow([path, force_download])

Multiome data of bone marrow measurements [Luecken et al., 2021].

datasets.c_elegans([path, force_download])

scRNA-seq time-series dataset of C.elegans embryogenesis [Packer et al., 2019].

datasets.drosophila([path, force_download])

Embryo of Drosophila melanogaster described in [Li et al., 2022].

datasets.hspc([path, force_download])

CD34+ hematopoietic stem and progenitor cells from 4 healthy human donors.

datasets.mosta([path, force_download])

Preprocessed and extracted data as provided in [Chen et al., 2022].

datasets.pancreas_multiome(rna_only[, path, ...])

Pancreatic endocrinogenesis dataset published with the moscot manuscript [Klein et al., 2025].

datasets.sciplex([path, force_download])

Perturbation dataset published in [Srivatsan et al., 2020].

datasets.sim_align([path, force_download])

Spatial transcriptomics simulated dataset as described in [Jones et al., 2022].

datasets.simulate_data([n_distributions, ...])

Simulate data.

datasets.tedsim([path, force_download])

Dataset simulated with TedSim [Pan et al., 2022].

datasets.zebrafish([path, force_download])

Lineage-traced scRNA-seq time-series dataset of Zebrafish heart regeneration [Hu et al., 2022].