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(chore): ellipses for shortened docstring test
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@ilan-gold
ilan-gold committed Feb 17, 2025
1 parent b304edc commit 7d03d36
Showing 1 changed file with 3 additions and 13 deletions.
16 changes: 3 additions & 13 deletions src/anndata/experimental/backed/_io.py
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Original file line number Diff line number Diff line change
Expand Up @@ -68,26 +68,16 @@ def read_lazy(
>>> fetal_adata = ad.experimental.read_lazy(path_fetal)
>>> print(b_cells_adata)
AnnData object with n_obs × n_vars = 146 × 33452
obs: 'donor_id', 'self_reported_ethnicity_ontology_term_id', 'organism_ontology_term_id', 'sample_uuid', 'sample_preservation_method', 'tissue_ontology_term_id', 'development_stage_ontology_term_id', 'suspension_uuid', 'suspension_type', 'library_uuid', 'assay_ontology_term_id', 'mapped_reference_annotation', 'is_primary_data', 'cell_type_ontology_term_id', 'author_cell_type', 'disease_ontology_term_id', 'sex_ontology_term_id', 'nCount_RNA', 'nFeature_RNA', 'percent.mt', 'Phase', 'sample', 'cell_type', 'assay', 'disease', 'organism', 'sex', 'tissue', 'self_reported_ethnicity', 'development_stage'
var: 'feature_is_filtered', 'feature_name', 'feature_reference', 'feature_biotype'
uns: 'default_embedding', 'schema_version', 'title'
obsm: 'X_harmony', 'X_pca', 'X_umap'
obs: 'donor_id', 'self_reported_ethnicity_ontology_term_id', 'organism_ontology_term_id', ...
>>> print(fetal_adata)
AnnData object with n_obs × n_vars = 344 × 15585
obs: 'nCount_Spatial', 'nFeature_Spatial', 'Cluster', 'adult_pred_type', 'adult_pred_value', 'fetal_pred_type', 'fetal_pred_value', 'pDCs', 'Cell Cycle', 'Type 3 ILCs', 'DCs', 'Mast', 'Monocytes', 'Naive T-Cells', 'Venous (CP) 1', 'Venous (M) 2', 'Arterial (L)', 'Endothelium G2M-phase', 'Venous (CP) 2', 'Arterial (CP)', 'Arterial (M)', 'Endothelium S-phase', 'Proximal Progenitor', 'Proximal Mature Enterocytes', 'BEST4_OTOP2 Cells', 'Proximal TA', 'Proximal Early Enterocytes', 'Proximal Enterocytes', 'Proximal Stem Cells', 'EECs', 'Distal Enterocytes', 'Goblets', 'Distal TA', 'Distal Absorptive', 'Distal Stem Cells', 'Secretory Progenitors', 'Distal Mature Enterocytes', 'S1', 'S1 COL6A5+', 'S4 CCL21+', 'Proximal S2 (2)', 'S1 IFIT3+', 'Distal S2', 'Fibroblasts S-phase', 'Proximal S2 (1)', 'S3 Progenitor', 'Fibroblasts G2M-phase', 'S4 CXCL14+', 'Fibroblast Progenitor', 'S3 Transitional', 'Erythroid', 'S3 EBF+', 'S3 HAND1+', 'Pericytes G2M-phase', 'Pericyte Progenitors', 'Undifferentiated Pericytes', 'ICC PDGFRA+', 'MYOCD+ Muscularis', 'Muscularis S-phase', 'Muscularis G2M-phase', 'HOXP+ Proximal Muscularis', 'FOXF2+ Distal Muscularis', 'FOXF2- Muscularis', 'MORN5+ Distal Muscularis', 'Myofibroblast Progenitors', 'Myofibroblasts', 'Mesothelium SOX6+', 'Myofibroblasts S-phase', 'Myofibroblasts G2M-phase', 'Glial Progenitors', 'Excitory Motor Neuron', 'Interneuron', 'Differentiating Submucosal Glial', 'Inhibitory Motor Neuron Precursor', 'Neuroendocrine (1)', 'max', 'tissue_ontology_term_id', 'assay_ontology_term_id', 'disease_ontology_term_id', 'development_stage_ontology_term_id', 'self_reported_ethnicity_ontology_term_id', 'cell_type_ontology_term_id', 'sex_ontology_term_id', 'is_primary_data', 'organism_ontology_term_id', 'donor_id', 'suspension_type', 'cell_type', 'assay', 'disease', 'organism', 'sex', 'tissue', 'self_reported_ethnicity', 'development_stage'
var: 'sct.detection_rate', 'sct.gmean', 'sct.variance', 'sct.residual_mean', 'sct.residual_variance', 'sct.variable', 'feature_is_filtered', 'feature_name', 'feature_reference', 'feature_biotype'
uns: 'adult_pred_mat', 'fetal_pred_mat', 'schema_version', 'title'
obsm: 'X_pca', 'X_spatial', 'X_umap'
layers: 'counts', 'scale.data'
obs: 'nCount_Spatial', 'nFeature_Spatial', 'Cluster', 'adult_pred_type'...
This functionality is compatible with :func:`anndata.concat`
>>> ad.concat([b_cells_adata, fetal_adata], join="outer")
AnnData object with n_obs × n_vars = 490 × 33452
obs: 'donor_id', 'self_reported_ethnicity_ontology_term_id', 'organism_ontology_term_id', 'sample_uuid', 'sample_preservation_method', 'tissue_ontology_term_id', 'development_stage_ontology_term_id', 'suspension_uuid', 'suspension_type', 'library_uuid', 'assay_ontology_term_id', 'mapped_reference_annotation', 'is_primary_data', 'cell_type_ontology_term_id', 'author_cell_type', 'disease_ontology_term_id', 'sex_ontology_term_id', 'nCount_RNA', 'nFeature_RNA', 'percent.mt', 'Phase', 'sample', 'cell_type', 'assay', 'disease', 'organism', 'sex', 'tissue', 'self_reported_ethnicity', 'development_stage', 'nCount_Spatial', 'nFeature_Spatial', 'Cluster', 'adult_pred_type', 'adult_pred_value', 'fetal_pred_type', 'fetal_pred_value', 'pDCs', 'Cell Cycle', 'Type 3 ILCs', 'DCs', 'Mast', 'Monocytes', 'Naive T-Cells', 'Venous (CP) 1', 'Venous (M) 2', 'Arterial (L)', 'Endothelium G2M-phase', 'Venous (CP) 2', 'Arterial (CP)', 'Arterial (M)', 'Endothelium S-phase', 'Proximal Progenitor', 'Proximal Mature Enterocytes', 'BEST4_OTOP2 Cells', 'Proximal TA', 'Proximal Early Enterocytes', 'Proximal Enterocytes', 'Proximal Stem Cells', 'EECs', 'Distal Enterocytes', 'Goblets', 'Distal TA', 'Distal Absorptive', 'Distal Stem Cells', 'Secretory Progenitors', 'Distal Mature Enterocytes', 'S1', 'S1 COL6A5+', 'S4 CCL21+', 'Proximal S2 (2)', 'S1 IFIT3+', 'Distal S2', 'Fibroblasts S-phase', 'Proximal S2 (1)', 'S3 Progenitor', 'Fibroblasts G2M-phase', 'S4 CXCL14+', 'Fibroblast Progenitor', 'S3 Transitional', 'Erythroid', 'S3 EBF+', 'S3 HAND1+', 'Pericytes G2M-phase', 'Pericyte Progenitors', 'Undifferentiated Pericytes', 'ICC PDGFRA+', 'MYOCD+ Muscularis', 'Muscularis S-phase', 'Muscularis G2M-phase', 'HOXP+ Proximal Muscularis', 'FOXF2+ Distal Muscularis', 'FOXF2- Muscularis', 'MORN5+ Distal Muscularis', 'Myofibroblast Progenitors', 'Myofibroblasts', 'Mesothelium SOX6+', 'Myofibroblasts S-phase', 'Myofibroblasts G2M-phase', 'Glial Progenitors', 'Excitory Motor Neuron', 'Interneuron', 'Differentiating Submucosal Glial', 'Inhibitory Motor Neuron Precursor', 'Neuroendocrine (1)', 'max'
var: 'feature_is_filtered', 'feature_name', 'feature_reference', 'feature_biotype', 'sct.detection_rate', 'sct.gmean', 'sct.variance', 'sct.residual_mean', 'sct.residual_variance', 'sct.variable'
obsm: 'X_harmony', 'X_pca', 'X_umap', 'X_spatial'
layers: 'counts', 'scale.data'
obs: 'donor_id', 'self_reported_ethnicity_ontology_term_id', 'organism_ontology_term_id'...
"""
try:
import xarray # noqa: F401
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