Open .dat and .atr file types with Python

Question

I'm trying to read in .dat and .atr files with Python; from Physionet, these for example. I've tried the standard context manager opening method:

with open("path/to/files/101.dat", "rb") as f:
  for line in f: print f

But I get uninterpretable results like D"D ?C?C?C!?C?C?C?C?C for the lines. These lines should be like 3.0000000e-003 4.9950000e+000 4.3400000e+000 (I know this from published studies with this dataset). Any ideas how I can read in this data?

I'd recommend digging in to these links: physionet.org/physiotools/wpg/wpg_toc.htm and physionet.org/physiotools/wag — Tanner
– Tanner, Commented Feb 1, 2016 at 2:09

Community · Accepted Answer · 2017-05-23 11:46:13Z

6

You can try to open it using numpy

import numpy as np
myarray = np.fromfile("path/to/files/101.dat",dtype=float)

edited May 23, 2017 at 11:46

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answered Feb 1, 2016 at 9:36

mabe02

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1 Comment

theabc50111 Over a year ago

This can open file, but not in correct way

kabby · Accepted Answer · 2019-11-15 05:22:38Z

3

To read a .dat file use the following code-

record = wfdb.rdrecord('../input/apneaecg/apnea-ecg/a01') 
wfdb.plot_wfdb(record, title='Record a01 from Physionet Apnea ECG') 
display(record.__dict__)

You need to have wfdb library installed for that. The p_signal array in the above dictionary contains the ECG values for a01 person.

edited Nov 15, 2019 at 5:22

answered Nov 15, 2019 at 5:04

kabby

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Comments

Esther · Accepted Answer · 2020-10-21 16:34:22Z

0

I know this is old, but this has worked for me:

data = np.genfromtxt('data.dat' , dtype=None, names=True, delimiter='\t')

answered Oct 21, 2020 at 16:34

Esther

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