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Added placeholder pulse_detect function to avoid error.
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@tompollard
tompollard committed Jul 11, 2022
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Showing 1 changed file with 80 additions and 16 deletions.
96 changes: 80 additions & 16 deletions content/tutorial/notebooks/beat-detection.ipynb
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"# Beat detection\n",
"In this tutorial we will learn how to detect beats in PPG and BP signals.\n",
"\n",
"our **objectives** are to:\n",
"Our **objectives** are to:\n",
"- Call Python functions that are stored in a separate file\n",
"- Use beat detection algorithms to detect beats in PPG and BP signals\n",
"- Compare performance of the algorithms"
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},
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}
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{
"output_type": "stream",
"name": "stdout",
"text": [
"Looking in indexes: https://pypi.org/simple, https://us-python.pkg.dev/colab-wheels/public/simple/\n",
"Collecting wfdb==4.0.0\n",
" Downloading wfdb-4.0.0-py3-none-any.whl (161 kB)\n",
"\u001b[K |████████████████████████████████| 161 kB 2.9 MB/s \n",
"\u001b[?25hRequirement already satisfied: scipy<2.0.0,>=1.0.0 in /usr/local/lib/python3.7/dist-packages (from wfdb==4.0.0) (1.4.1)\n",
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"Requirement already satisfied: pytz>=2017.3 in /usr/local/lib/python3.7/dist-packages (from pandas<2.0.0,>=1.0.0->wfdb==4.0.0) (2022.1)\n",
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"Installing collected packages: wfdb\n",
"Successfully installed wfdb-4.0.0\n"
]
}
],
"source": [
"# Packages\n",
"import sys\n",
Expand Down Expand Up @@ -112,7 +148,7 @@
"id": "60464239",
"metadata": {
"id": "60464239",
"outputId": "b69fd1bf-56dc-4532-91c7-07a06e537aa6",
"outputId": "c03e45df-1855-4eab-e60d-dd3a18d7b76a",
"colab": {
"base_uri": "https://localhost:8080/"
}
Expand Down Expand Up @@ -278,11 +314,30 @@
},
{
"cell_type": "code",
"execution_count": 12,
"source": [
"def pulse_detect(*args, **kwargs):\n",
" \"\"\"\n",
" Placeholder for a pulse detection function.\n",
" \"\"\"\n",
" msg = \"\"\"Override the pulse_detect function with the example \n",
" provided at the bottom of this notebook.\\n\"\"\"\n",
" print(msg)\n",
" return None"
],
"metadata": {
"id": "GUSfOVb0m3hD"
},
"id": "GUSfOVb0m3hD",
"execution_count": 30,
"outputs": []
},
{
"cell_type": "code",
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"id": "8f245cd9",
"metadata": {
"id": "8f245cd9",
"outputId": "8d7ba0e0-3f77-4faf-ac2c-c841e53a4943",
"outputId": "e05d1404-a0b4-4084-97db-4a937ac1664f",
"colab": {
"base_uri": "https://localhost:8080/"
}
Expand All @@ -292,23 +347,32 @@
"output_type": "stream",
"name": "stdout",
"text": [
"Detected 15 beats in the PPG signal using the D2max algorithm\n",
"Detected 30 beats in the PPG signal using the Upslopes algorithm\n",
"Detected 15 beats in the PPG signal using the Delineator algorithm\n"
"Override the pulse_detect function with the example \n",
" provided at the bottom of this notebook.\n",
"\n",
"Override the pulse_detect function with the example \n",
" provided at the bottom of this notebook.\n",
"\n",
"Override the pulse_detect function with the example \n",
" provided at the bottom of this notebook.\n",
"\n"
]
}
],
"source": [
"temp_fs = 125\n",
"\n",
"ppg_ibis_d2max = pulse_detect(ppg_filt, temp_fs, 5, 'd2max')\n",
"print(f\"Detected {len(ppg_ibis_d2max)} beats in the PPG signal using the {'D2max'} algorithm\")\n",
"if ppg_ibis_d2max:\n",
" print(f\"Detected {len(ppg_ibis_d2max)} beats in the PPG signal using the {'D2max'} algorithm\")\n",
"\n",
"ppg_ibis_upslopes = pulse_detect(ppg_filt, temp_fs, 5,'upslopes')\n",
"print(f\"Detected {len(ppg_ibis_upslopes)} beats in the PPG signal using the {'Upslopes'} algorithm\")\n",
"if ppg_ibis_upslopes:\n",
" print(f\"Detected {len(ppg_ibis_upslopes)} beats in the PPG signal using the {'Upslopes'} algorithm\")\n",
"\n",
"ppg_ibis_delineator = pulse_detect(ppg_filt, temp_fs, 5, 'delineator')\n",
"print(f\"Detected {len(ppg_ibis_delineator)} beats in the PPG signal using the {'Delineator'} algorithm\")"
"if ppg_ibis_delineator:\n",
" print(f\"Detected {len(ppg_ibis_delineator)} beats in the PPG signal using the {'Delineator'} algorithm\")"
]
},
{
Expand All @@ -323,7 +387,7 @@
},
{
"cell_type": "code",
"execution_count": 13,
"execution_count": null,
"id": "aa48073c",
"metadata": {
"id": "aa48073c",
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},
{
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"execution_count": 14,
"execution_count": null,
"id": "36a19da3",
"metadata": {
"id": "36a19da3",
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},
{
"cell_type": "code",
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"execution_count": null,
"id": "956b1637",
"metadata": {
"id": "956b1637",
Expand Down

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