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import numpy as np arr = np.array([1,2,3,4,5,6,7,8,9,10,11,12,13,14]) to_remove = np.array([3,6,7,11]) remained_indexes = (np.isin(arr, to_remove)==False).nonzero()[0] arr = arr[remained_indexes] print(arr) ''' run: [ 1 2 4 5 8 9 10 12 13 14] '''