Yapf (d872861b) · Commits · 钟慕尧 / deepchem

deepchem/metrics/genomic_metrics.py

+4 −5

Original line number	Diff line number	Diff line
		@@ -47,8 +47,8 @@ def get_motif_scores(encoded_sequences,
		sorted_positions = scores.argsort()[:, :, ::-1][:, :, :max_scores]
		return np.concatenate(
		(sorted_scores.reshape((num_samples, len(motif_names) * max_scores)),
		sorted_positions.reshape((num_samples,
		len(motif_names) * max_scores))),
		sorted_positions.reshape(
		(num_samples, len(motif_names) * max_scores))),
		axis=1)
		else:
		return sorted_scores.reshape((num_samples, len(motif_names) * max_scores))
		@@ -115,9 +115,8 @@ def in_silico_mutagenesis(model, X):
		# Shape (N_sequences, num_tasks, 1, 1, 1)
		wild_type_predictions = wild_type_predictions[:, np.newaxis, np.newaxis,
		np.newaxis]
		for sequence_index, (
		sequence,
		wild_type_prediction) in enumerate(zip(X, wild_type_predictions)):
		for sequence_index, (sequence, wild_type_prediction) in enumerate(
		zip(X, wild_type_predictions)):

		# Mutates every position of the sequence to every letter
		# Shape (N_letters * sequence_length, N_letters, sequence_length, 1)