Major refactor! Remove additional variation of the "ephys" modules! Support using SpikeInterface for spike sorting#201

Merged

kushalbakshi merged 204 commits intodatajoint:mainfrom

ttngu207:dev_new_main

Jan 28, 2025

Commits on Nov 30, 2022

first prototype in separating `Clustering` into multiple steps
Thinh Nguyen
committed
Merge branch 'main' into modular_clustering
Thinh Nguyen
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Commits on Dec 6, 2022

Merge branch 'main' into modular_clustering
Thinh Nguyen
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Commits on Jan 5, 2023

Merge branch 'main' into modular_clustering
Thinh Nguyen
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Update ecephys_spike_sorting.py
Thinh Nguyen
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Update ecephys_spike_sorting.py
Thinh Nguyen
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fix typo
Thinh Nguyen
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Commits on Jan 6, 2023

Update ecephys_spike_sorting.py
Thinh Nguyen
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improve log messages
Thinh Nguyen
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fix key_source
Thinh Nguyen
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Commits on Jan 18, 2023

Update ecephys_spike_sorting.py
Thinh Nguyen
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Commits on Jan 19, 2023

bugfix
Thinh Nguyen
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bugfix
Thinh Nguyen
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Commits on Jan 20, 2023

Merge branch 'main' into modular_clustering
Thinh Nguyen
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Merge branch 'main' into modular_clustering
Thinh Nguyen
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Update kilosort_triggering.py
Thinh Nguyen
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Commits on Jan 23, 2023

fix docstring
Thinh Nguyen
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added description
Thinh Nguyen
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Commits on Jan 24, 2023

Merge branch 'main' into modular_clustering
Thinh Nguyen
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Commits on Jan 25, 2023

refactor `_supported_kilosort_versions`
Thinh Nguyen
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remove unused imports
Thinh Nguyen
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Commits on Feb 2, 2023

add new file for spike interface modularized clustering approach
sidhulyalkar
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Commits on Feb 4, 2023

Commits on Feb 9, 2023

Commits on Feb 11, 2023

sglx preprocessing modifications
sidhulyalkar
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Commits on Feb 13, 2023

sglx testing progress
sidhulyalkar
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Commits on Feb 15, 2023

wip parametrize preprocessing
sidhulyalkar
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Commits on Feb 18, 2023

Commits on Feb 20, 2023

Fix data loading bug related to cluster_groups and KSLabel df key
sidhulyalkar
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Commits on Feb 22, 2023

waveform extraction wip
sidhulyalkar
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Commits on Feb 23, 2023

Commits on Mar 6, 2023

bugfix in postprocessing definition
sidhulyalkar
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Commits on Mar 8, 2023

Commits on May 15, 2023

Commits on Jun 13, 2023

Merge branch 'datajoint:main' into modular_spikeinterface
sidhulyalkar
authored

Commits on Jun 14, 2023

fix spikeglx stream loading
sidhulyalkar
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Commits on Aug 3, 2023

Merge branch 'modular_spikeinterface' of https://github.com/sidhulyalkar/element-array-ephys into si
JaerongA
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Commits on Oct 10, 2023

Merge branch 'datajoint:main' into si
JaerongA
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Commits on Oct 11, 2023

Commits on Oct 13, 2023

modify key_source in PreProcessing
JaerongA
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Commits on Dec 14, 2023

feat: :sparkles: improve to_probeinterface
JaerongA
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Commits on Dec 15, 2023

Commits on Dec 20, 2023

Commits on Jan 3, 2024

Commits on Jan 5, 2024

Commits on Feb 1, 2024

feat: :sparkles: modify QualityMetrics make function
JaerongA
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Commits on Feb 6, 2024

update si_spike_sorting.PreProcessing make function
JaerongA
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Commits on Feb 8, 2024

Commits on Feb 12, 2024

update WaveformSet ingestion
JaerongA
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Commits on Feb 13, 2024

Commits on Feb 15, 2024

feat: :sparkles: add EphysRecording.Channel part table
JaerongA
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Commits on Feb 19, 2024

Commits on Feb 20, 2024

build: :heavy_plus_sign: add element-interface to required packages
JaerongA
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Commits on Feb 21, 2024

update pre-commit with the latest hooks
JaerongA
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Commits on Feb 27, 2024

Commits on Feb 29, 2024

Commits on Mar 1, 2024

Commits on Mar 5, 2024

Commits on Mar 7, 2024

refactor: :recycle: change sorter_name
JaerongA
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Commits on Mar 8, 2024

Commits on Apr 4, 2024

Merge remote-tracking branch 'upstream/datajoint-spikeinterface' into datajoint-spikeinterface
ttngu207
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Commits on Apr 17, 2024

feat: save spike interface results with relative path
ttngu207
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Commits on Apr 29, 2024

Commits on May 7, 2024

Refactor Quality Metrics Logic + blackformatting
MilagrosMarin
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Commits on May 8, 2024

Commits on May 9, 2024

update `postprocessing` logic
MilagrosMarin
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Commits on May 14, 2024

Merge remote-tracking branch 'upstream/datajoint-spikeinterface' into datajoint-spikeinterface
ttngu207
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Commits on Jun 3, 2024

feat: replace `output_folder` with `folder` when calling `run_sorter`, use default value for `peak_sign`
ttngu207
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Commits on Jun 4, 2024

Merge pull request #193 from ttngu207/dev_spikeinterface_v101
kushalbakshi
authored

Commits on Jun 5, 2024

Commits on Jul 6, 2024

Commits on Jul 30, 2024

fix: bugfix spikeinterface extractor name
ttngu207
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Commits on Aug 16, 2024

Merge branch 'main' into datajoint-spikeinterface
ttngu207
committed

Commits on Aug 19, 2024

Merge pull request #200 from ttngu207/datajoint-spikeinterface
kushalbakshi
authored

Commits on Sep 10, 2024

Commits on Sep 19, 2024

Commits on Oct 8, 2024

Commits on Oct 9, 2024

fix(spike_sorting): create empty `sorting_analyzer` folder when no units found
ttngu207
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Commits on Oct 10, 2024

Merge branch 'datajoint-spikeinterface' into dev_new_main
ttngu207
committed

Commits on Oct 25, 2024

Merge pull request #13 from kushalbakshi/dev_new-main-docs
ttngu207
authored

Commits on Jan 13, 2025

Commits on Jan 14, 2025

update: make this the `1.0.0` release
ttngu207
committed

Commits on Jan 24, 2025