lamindb.core.datasets

Test collections.

file_fcs()

Example FCS artifact.

file_fcs_alpert19([populate_registries])

FCS file from Alpert19.

file_tsv_rnaseq_nfcore_salmon_merged_gene_counts([...])

Gene counts table from nf-core RNA-seq pipeline.

file_jpg_paradisi05()

Return jpg file example.

file_tiff_suo22()

Image file from Suo22.

file_fastq([in_storage_root])

Mini mock fastq artifact.

file_bam([in_storage_root])

Mini mock bam artifact.

file_mini_csv([in_storage_root])

Mini csv artifact.

dir_scrnaseq_cellranger(sample_name[, ...])

Generate mock cell ranger outputs.

dir_iris_images()

Directory with 3 studies of the Iris flower: 405 images & metadata.

df_iris()

The iris collection as in sklearn.

df_iris_in_meter()

The iris collection with lengths in meter.

df_iris_in_meter_study1()

The iris collection with lengths in meter.

df_iris_in_meter_study2()

The iris collection with lengths in meter.

anndata_mouse_sc_lymph_node([...])

Mouse lymph node scRNA-seq collection from EBI.

anndata_human_immune_cells([populate_registries])

Cross-tissue immune cell analysis reveals tissue-specific features in humans.

anndata_pbmc68k_reduced()

Modified from scanpy.collections.pbmc68k_reduced().

anndata_file_pbmc68k_test()

Modified from scanpy.collections.pbmc68k_reduced().

anndata_pbmc3k_processed()

Modified from scanpy.pbmc3k_processed().

anndata_with_obs()

Create a mini anndata with cell_type, disease and tissue.

anndata_suo22_Visium10X()

AnnData from Suo22 generated by 10x Visium.

mudata_papalexi21_subset()

A subsetted mudata from papalexi21.

schmidt22_crispra_gws_IFNG([basedir])

CRISPRi screen collection of Schmidt22.

schmidt22_perturbseq([basedir])

Perturb-seq collection of Schmidt22.

fake_bio_notebook_titles([n])

A fake collection of study titles.