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Tutorials
Preprocessing
Clustering and Pattern Analysis
Region Topic Analysis
API
Preprocessing
pp
tfmindi.pp.extract_seqlets
tfmindi.pp.calculate_motif_similarity
tfmindi.pp.create_seqlet_adata
Tools
tl
tfmindi.tl.cluster_seqlets
tfmindi.tl.create_patterns
tfmindi.tl.run_topic_modeling
tfmindi.tl.evaluate_topic_models
Plotting
pl
tfmindi.pl.tsne
tfmindi.pl.tsne_logos
tfmindi.pl.dbd_heatmap
tfmindi.pl.dbd_topic_heatmap
tfmindi.pl.region_contributions
tfmindi.pl.dbd_logos
tfmindi.pl.dbd_cluster_logos
tfmindi.pl.region_topic_tsne
tfmindi.pl.render_plot
Input/Output
tfmindi.save_h5ad
tfmindi.load_h5ad
tfmindi.save_patterns
tfmindi.load_patterns
Datasets
tfmindi.fetch_motif_collection
tfmindi.fetch_motif_annotations
tfmindi.load_motif_collection
tfmindi.load_motif_annotations
tfmindi.load_motif_to_dbd
Types
Backends
tfmindi.get_backend
tfmindi.set_backend
tfmindi.is_gpu_available
Merge
tfmindi.concat
Changelog
Contributing guide
References
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