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ALLCools.motif

ALLCools.motif

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class MotifSet(motifs, meta_table=None, motif_cluster_col='cluster_id')[source]
calculate_threshold(self, method='balanced', cpu=1, threshold_value=1000)
_multi_seq_motif_scores(self, seq_list, save_path, region_dim, motif_dim, dtype)
_run_motif_scan_chunks(self, fasta_path, output_dir, region_dim, motif_dim, dtype, chunk_size=10000, cpu=1)
_aggregate_motif_clusters(self, output_dir, motif_dim, region_dim, dtype, chunk_size=1000000)
scan_motifs(self, fasta_path, output_dir, cpu, region_dim, motif_dim='motif', combine_cluster=True, dtype='uint16', chunk_size=10000)
get_default_motif_set(database='three_databases')[source]

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