Thanks for the replies. >I'd recommend just reading that csv file with e.g. pandas >( https://pandas.pydata.org/pandas-docs/stable/reference/api/pandas.read_csv.html),
>and then just use the dataframe as input to scikit-learn utilities (you may need to >separate the features X from the target y). I am trying to follow the steps as described in https://towardsdatascience.com/a-step-by-step-introduction-to-pca-c0d78e26a0dd I changed iris = load_iris() colors = ["blue","red","green"] df = DataFrame( data=np.c_[iris["data"], iris["target"]], columns= iris["feature_names"] + ["target"]) to data_file = pd.read_csv("mydata.csv") colors = ["blue","red","green","skyblue","indigo","plum","coral","orange","gray","lime"] df = DataFrame( data=np.c_[data_file["data"], data_file["target"]], columns=data_file["feature_names"] + ["target"]) But I get this error: Traceback (most recent call last): File "/home/mahmood/.local/lib/python3.6/site-packages/pandas/core/indexes/base.py", line 2895, in get_loc return self._engine.get_loc(casted_key) File "pandas/_libs/index.pyx", line 70, in pandas._libs.index.IndexEngine.get_loc File "pandas/_libs/index.pyx", line 101, in pandas._libs.index.IndexEngine.get_loc File "pandas/_libs/hashtable_class_helper.pxi", line 1675, in pandas._libs.hashtable.PyObjectHashTable.get_item File "pandas/_libs/hashtable_class_helper.pxi", line 1683, in pandas._libs.hashtable.PyObjectHashTable.get_item KeyError: 'data' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "pca_gromacs.py", line 12, in <module> data=np.c_[data_file["data"], data_file["target"]], columns=data_file["feature_names"] + ["target"] File "/home/mahmood/.local/lib/python3.6/site-packages/pandas/core/frame.py", line 2906, in __getitem__ indexer = self.columns.get_loc(key) File "/home/mahmood/.local/lib/python3.6/site-packages/pandas/core/indexes/base.py", line 2897, in get_loc raise KeyError(key) from err KeyError: 'data' It seems that load_iris() do more than read_csv(). Regards, Mahmood
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