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kushalbakshi committed Nov 28, 2023
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"source": [
"# DataJoint Elements for Array Electrophysiology with NeuroPixels\n",
"\n",
"#### Open-source Data Pipeline for Processing and Analyzing Extracellular Electrophysiology Datasets\n",
"#### Open-source data pipeline for processing and analyzing extracellular electrophysiology datasets.\n",
"\n",
"Welcome to the tutorial for the DataJoint Element for extracellular array electrophysiology. This\n",
"tutorial aims to provide a comprehensive understanding of the open-source data pipeline\n",
"created using `element-array-ephys`.\n",
"\n",
"This package is designed to seamlessly process and ingest extracellular electrophysiology\n",
"This package is designed to seamlessly process, ingest, and track extracellular electrophysiology\n",
"data, along with its associated probe and recording metadata. By the end of this\n",
"tutorial you will have a clear grasp on setting up and integrating `element-array-ephys`\n",
"into your specific research projects and lab. \n",
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"and manage sessions of array electrophysiology data, including spike sorting results and\n",
"unit-level visualizations. \n",
"\n",
"The results of this Element example can be combined with **other modalities** to create\n",
"a complete customizable data pipeline for your specific lab or study. For instance, you\n",
"The results of this Element can be combined with **other modalities** to create\n",
"a complete, customizable data pipeline for your specific lab or study. For instance, you\n",
"can combine `element-array-ephys` with `element-calcium-imaging` and\n",
"`element-deeplabcut` to characterize the neural activity along with markless\n",
"pose-estimation during behavior.\n",
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"cell_type": "markdown",
"metadata": {},
"source": [
"If the tutorial is run in Codespaces, there is a local database private to you for\n",
"experimentation. Let's connect to the database server."
"If the tutorial is run in Codespaces, a private, local database server is created and\n",
"made available for you. This is where we will insert and store our processed results.\n",
"Let's connect to the database server."
]
},
{
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"As evident from the diagram, this data pipeline encompasses tables associated with\n",
"recording and probe metadata, results of clustering, and optional curation of clustering\n",
"results. A few tables, such as `subject.Subject` or `session.Session`,\n",
"while important for a complete pipeline, fall outside the scope of `element-array-ephys`\n",
"while important for a complete pipeline, fall outside the scope of the `element-array-ephys`\n",
"tutorial, and will therefore, not be explored extensively here. The primary focus of\n",
"this tutorial will be on the `probe` and `ephys` schemas.\n",
"\n",
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