Source code for tdc.multi_pred.ppi

# -*- coding: utf-8 -*-
# Author: TDC Team
# License: MIT

import warnings
warnings.filterwarnings("ignore")
import sys

from ..utils import print_sys
from . import bi_pred_dataset, multi_pred_dataset
from ..metadata import dataset_names

[docs]class PPI(bi_pred_dataset.DataLoader): """Data loader class to load datasets in Protein-Protein Interaction Prediction task. More info: https://tdcommons.ai/multi_pred_tasks/ppi/ Task Description: Binary Classification. Given the target amino acid sequence pairs, predict if they interact or not. Args: name (str): the dataset name. path (str, optional): The path to save the data file, defaults to './data' label_name (str, optional): For multi-label dataset, specify the label name, defaults to None print_stats (bool, optional): Whether to print basic statistics of the dataset, defaults to False """ def __init__(self, name, path='./data', label_name=None, print_stats=False): """Create Protein-Protein Interaction Prediction dataloader object """ super().__init__(name, path, label_name, print_stats, dataset_names=dataset_names["PPI"]) self.entity1_name = 'Protein1' self.entity2_name = 'Protein2' self.two_types = False if print_stats: self.print_stats() print('Done!', flush=True, file=sys.stderr)
[docs] def print_stats(self): """print the statistics of the dataset """ import numpy as np print_sys('--- Dataset Statistics ---') print('There are ' + str(len(np.unique( self.entity1.tolist() + self.entity2.tolist()))) + ' unique proteins.', flush=True, file=sys.stderr) print('There are ' + str(len(self.y)) + ' protein-protein pairs.', flush=True, file=sys.stderr) print_sys('--------------------------')