rename to ecephys
4 changed files+20−20
benchcompress/src/benchcompress/datasets/__init__.pymodified+2−2View file
@@ -1,13 +1,13 @@
11 from .bernoulli import datasets as bernoulli_datasets
22 from .gaussian import datasets as gaussian_datasets
3-from .electrophysiology import datasets as real_datasets
3+from .ecephys import datasets as ecephys_datasets
44 from .seismic import datasets as seismic_datasets
55 from .ieeg import datasets as ieeg_datasets
66
77 datasets_list = [
88 bernoulli_datasets,
99 gaussian_datasets,
10- real_datasets,
10+ ecephys_datasets,
1111 seismic_datasets,
1212 ieeg_datasets,
1313 ]
benchcompress/src/benchcompress/datasets/electrophysiology/__init__.py →benchcompress/src/benchcompress/datasets/ecephys/__init__.pyrenamed+15−15View file
@@ -6,19 +6,19 @@ from ..._filters import bandpass_filter
66 from ..._analysis import estimate_noise_level
77
88
9-SOURCE_FILE = "electrophysiology/__init__.py"
9+SOURCE_FILE = "ecephys/__init__.py"
1010
1111
1212 def _load_long_description():
1313 current_dir = os.path.dirname(os.path.abspath(__file__))
14- md_path = os.path.join(current_dir, "electrophysiology.md")
14+ md_path = os.path.join(current_dir, "ecephys.md")
1515 with open(md_path, "r", encoding="utf-8") as f:
1616 return f.read()
1717
1818
1919 LONG_DESCRIPTION = _load_long_description()
2020
21-tags = ["real", "electrophysiology", "timeseries", "1d", "integer", "continuous"]
21+tags = ["real", "ecephys", "timeseries", "1d", "integer", "continuous"]
2222
2323
2424 def _load_real_000876(
@@ -202,7 +202,7 @@ def _create_sparse_version(X: np.ndarray) -> np.ndarray:
202202
203203 datasets = [
204204 {
205- "name": "ephys-000876-ch45",
205+ "name": "ecephys-000876-ch45",
206206 "version": "1",
207207 "description": "Raw extracellular electrophysiology recording from DANDI:000876.",
208208 "create": lambda: _load_real_000876(
@@ -213,7 +213,7 @@ datasets = [
213213 "long_description": LONG_DESCRIPTION,
214214 },
215215 {
216- "name": "ephys-000409-ch101",
216+ "name": "ecephys-000409-ch101",
217217 "version": "1",
218218 "description": "Raw extracellular electrophysiology recording from DANDI:000409.",
219219 "create": lambda: _load_real_000409(
@@ -224,7 +224,7 @@ datasets = [
224224 "long_description": LONG_DESCRIPTION,
225225 },
226226 {
227- "name": "ephys-001290-ch0",
227+ "name": "ecephys-001290-ch0",
228228 "version": "1",
229229 "description": "Raw extracellular electrophysiology recording from DANDI:001290.",
230230 "create": lambda: _load_real_001290(
@@ -236,7 +236,7 @@ datasets = [
236236 },
237237 # embargoed
238238 # {
239- # "name": "ephys-001259",
239+ # "name": "ecephys-001259",
240240 # "version": "1",
241241 # "description": "Raw extracellular electrophysiology recording from DANDI:001259.",
242242 # "create": lambda: _load_real_001259(num_samples=500_000).flatten(),
@@ -245,7 +245,7 @@ datasets = [
245245 # "long_description": LONG_DESCRIPTION,
246246 # },
247247 {
248- "name": "ephys-000876-ch45-filtered",
248+ "name": "ecephys-000876-ch45-filtered",
249249 "version": "1",
250250 "description": "Preprocessed version of real-000876-ch45. Bandpass filtered (300-6000 Hz).",
251251 "create": lambda: _create_filtered_version(
@@ -258,7 +258,7 @@ datasets = [
258258 "long_description": LONG_DESCRIPTION,
259259 },
260260 {
261- "name": "ephys-000409-ch101-filtered",
261+ "name": "ecephys-000409-ch101-filtered",
262262 "version": "1",
263263 "description": "Preprocessed version of real-000409-ch101. Bandpass filtered (300-6000 Hz).",
264264 "create": lambda: _create_filtered_version(
@@ -271,7 +271,7 @@ datasets = [
271271 "long_description": LONG_DESCRIPTION,
272272 },
273273 {
274- "name": "ephys-001290-ch0-filtered",
274+ "name": "ecephys-001290-ch0-filtered",
275275 "version": "1",
276276 "description": "Preprocessed version of real-001290-ch0. Bandpass filtered (300-6000 Hz).",
277277 "create": lambda: _create_filtered_version(
@@ -285,7 +285,7 @@ datasets = [
285285 },
286286 # embargoed
287287 # {
288- # "name": "ephys-001259-filtered",
288+ # "name": "ecephys-001259-filtered",
289289 # "version": "1",
290290 # "description": "Preprocessed version of real-001259. Bandpass filtered (300-6000 Hz).",
291291 # "create": lambda: _create_filtered_version(
@@ -296,7 +296,7 @@ datasets = [
296296 # "long_description": LONG_DESCRIPTION,
297297 # },
298298 {
299- "name": "ephys-000876-ch45-sparse",
299+ "name": "ecephys-000876-ch45-sparse",
300300 "version": "1",
301301 "description": "Sparse version of real-000876-ch45. Activity-based suppression applied.",
302302 "create": lambda: _create_sparse_version(
@@ -309,7 +309,7 @@ datasets = [
309309 "long_description": LONG_DESCRIPTION,
310310 },
311311 {
312- "name": "ephys-000409-ch101-sparse",
312+ "name": "ecephys-000409-ch101-sparse",
313313 "version": "1",
314314 "description": "Sparse version of real-000409-ch101. Activity-based suppression applied.",
315315 "create": lambda: _create_sparse_version(
@@ -322,7 +322,7 @@ datasets = [
322322 "long_description": LONG_DESCRIPTION,
323323 },
324324 {
325- "name": "ephys-001290-ch0-sparse",
325+ "name": "ecephys-001290-ch0-sparse",
326326 "version": "1",
327327 "description": "Sparse version of real-001290-ch0. Activity-based suppression applied.",
328328 "create": lambda: _create_sparse_version(
@@ -336,7 +336,7 @@ datasets = [
336336 },
337337 # embargoed
338338 # {
339- # "name": "ephys-001259-sparse",
339+ # "name": "ecephys-001259-sparse",
340340 # "version": "1",
341341 # "description": "Sparse version of real-001259. Activity-based suppression applied.",
342342 # "create": lambda: _create_sparse_version(
benchcompress/src/benchcompress/datasets/electrophysiology/electrophysiology.md →benchcompress/src/benchcompress/datasets/ecephys/ecephys.mdrenamed+2−2View file
@@ -1,6 +1,6 @@
1-# Electrophysiology Dataset
1+# Extracellular Electrophysiology Dataset
22
3-Electrophysiology datasets contain recordings of electrical activity from neurons in the brain. These recordings are made using microelectrodes that detect the small voltage changes produced by neurons when they fire action potentials (spikes).
3+Extracellular Electrophysiology datasets contain recordings of electrical activity from neurons in the brain. These recordings are made using microelectrodes that detect the small voltage changes produced by neurons when they fire action potentials (spikes).
44
55 ## Data Sources
66
benchcompress/src/benchcompress/datasets/ieeg/__init__.pymodified+1−1View file
@@ -15,7 +15,7 @@ def _load_long_description():
1515
1616 LONG_DESCRIPTION = _load_long_description()
1717
18-tags = ["real", "electrophysiology", "ieeg", "timeseries", "1d", "float", "continuous"]
18+tags = ["real", "ecephys", "ieeg", "timeseries", "1d", "float", "continuous"]
1919
2020
2121 def _load_ieeg_openneuro_005592() -> np.ndarray: