malva.quant module¶

exception malva.quant.MalvaReferenceNotFound[source]¶: Bases: Exception

malva.quant.write_mtx_header(file, shape)[source]¶

malva.quant.process_batch(kmer_index, seqs_batch, gene_names, mtx_file, feature_file, start_col, sliding_size=128, pct_threshold=0.65, count_at_most=10000, count_at_least=10, single_count=False, use_background_model=True)[source]¶

malva.quant.resave_h5ad(folder, kmer_index)[source]¶

malva.quant.process_reference(kmer_index, reference_file, folder_out, use_background_model=True, verbose=True, sliding_size=128, pct_threshold=0.65, count_at_most=10000, count_at_least=10, single_count=False, batch_size=500)[source]¶