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spikeextractors

Python-based module for extracting from, converting between, and interfacing with many common file formats in extracellular recording.

https://github.com/spikeinterface/spikeextractors

Science Score: 10.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    12 of 46 committers (26.1%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (2.8%) to scientific vocabulary

Keywords

data-retrieval electrophysiology neuroscience spike-sorting

Keywords from Contributors

ecog eeg meg neuroimaging application electrocorticography electroencephalography magnetoencephalography bids ieeg
Last synced: 6 months ago · JSON representation

Repository

Python-based module for extracting from, converting between, and interfacing with many common file formats in extracellular recording.

Basic Info
Statistics
  • Stars: 116
  • Watchers: 8
  • Forks: 48
  • Open Issues: 22
  • Releases: 0
Archived
Topics
data-retrieval electrophysiology neuroscience spike-sorting
Created over 7 years ago · Last pushed about 3 years ago
Metadata Files
Readme License

README.md

SpikeExtractors (LEGACY)

The spikeextractors package has now been integrated into spikeinterface.

This package will be maintained for a while for bug fixes only, then it will be deprecated.

New features and improvements will only be implemented for the spikeinterface package.

Owner

  • Name: SpikeInterface
  • Login: SpikeInterface
  • Kind: organization
  • Email: support@spikeinterface.com

A unified framework for spike sorting. Paper at: https://elifesciences.org/articles/61834

GitHub Events

Total
  • Watch event: 1
Last Year
  • Watch event: 1

Committers

Last synced: almost 3 years ago

All Time
  • Total Commits: 1,645
  • Total Committers: 46
  • Avg Commits per committer: 35.761
  • Development Distribution Score (DDS): 0.686
Top Committers
Name Email Commits
Alessio Buccino a****7@g****m 516
Cole Hurwitz c****z@g****m 287
Cody Baker c****9@n****u 186
luiztauffer l****r@h****m 138
colehurwitz s****3@r****k 70
Jeremy Magland j****d@g****m 65
Samuel Garcia s****e@g****m 49
!git for-each-ref --format='%(refname:short)' `git symbolic-ref HEAD` b****r@g****m 38
Matthias Hennig m****g@g****m 38
colehurwitz31 3****1@u****m 33
sbuergers s****s@g****m 29
Jasper Wouters j****s@e****e 18
h-mayorquin h****n@g****m 16
Cody Baker 5****D@u****m 16
Achilleas Koutsou a****k@g****m 16
Blood Raven c****d@g****m 15
Fernando J. Chaure f****e@u****m 12
rolandd r****n@b****h 10
Thijs t****s@u****l 10
Peter Jones p****s@n****e 8
Alan Liddell a****l@o****m 8
Saksham Sharda s****a@g****m 8
cat c****t 6
Steffen Bürgers 3****s@u****m 6
wuffi 2****i@u****m 6
Cole Hurwitz c****z@C****l 5
colehurwitz s****3@t****k 4
Yaroslav Halchenko d****n@o****m 3
catubc c****c@u****m 3
Cole Hurwitz c****z@c****k 3
and 16 more...
Committer Domains (Top 20 + Academic)
bsse.ethz.ch: 2 nd.edu: 1 raikonnen.inf.ed.ac.uk: 1 esat.kuleuven.be: 1 uva.nl: 1 nmi.de: 1 tomintoul.inf.ed.ac.uk: 1 onerussian.com: 1 c040081.wlan.net.ed.ac.uk: 1 keegan.ch: 1 macbookpro-122c.lan: 1 ed.ac.uk: 1 univ.ox.ac.uk: 1 bs-mbpr244.d.ethz.ch: 1 duke.edu: 1 flatironinstitute.org: 1 nerf.be: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 0
  • Total pull requests: 100
  • Average time to close issues: N/A
  • Average time to close pull requests: 8 days
  • Total issue authors: 0
  • Total pull request authors: 17
  • Average comments per issue: 0
  • Average comments per pull request: 1.67
  • Merged pull requests: 87
  • Bot issues: 0
  • Bot pull requests: 2
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
Pull Request Authors
  • alejoe91 (37)
  • CodyCBakerPhD (19)
  • luiztauffer (11)
  • sbuergers (6)
  • Saksham20 (6)
  • h-mayorquin (3)
  • bendichter (3)
  • lkeegan (2)
  • dependabot[bot] (2)
  • mhhennig (2)
  • samuelgarcia (2)
  • colehurwitz (2)
  • TomDonoghue (1)
  • yarikoptic (1)
  • MarineChap (1)
Top Labels
Issue Labels
Pull Request Labels
dependencies (2)

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 3,440 last-month
  • Total dependent packages: 3
  • Total dependent repositories: 23
  • Total versions: 48
  • Total maintainers: 2
pypi.org: spikeextractors

Python module for extracting recorded and spike sorted extracellular data from different file types and formats

  • Versions: 48
  • Dependent Packages: 3
  • Dependent Repositories: 23
  • Downloads: 3,440 Last month
Rankings
Dependent packages count: 2.3%
Dependent repos count: 3.0%
Downloads: 3.1%
Average: 4.2%
Forks count: 5.9%
Stargazers count: 6.6%
Maintainers (2)
alejoe91 colehurwitz
Last synced: 6 months ago

Dependencies

full_requirements.txt pypi
  • MEArec >=1.7.2
  • exdir ==0.4.1
  • h5py *
  • hdf5storage *
  • lxml >=4.6.3
  • mtscomp >=1.0.1
  • neo >=0.9.0
  • nixio ==1.5.0
  • pyintan >=0.3.0
  • pynwb >=1.4
  • pyopenephys >=1.1.4
  • pyyaml >=5.4.1
  • scipy >=1.6.3
  • shybrid >=0.4.2
  • sonpy *
requirements-dev.txt pypi
  • datalad *
  • neo ==0.10
  • parameterized *
requirements.txt pypi
  • numpy ==1.20
  • tqdm *
setup.py pypi
  • joblib *
  • numpy *
  • tqdm *
.github/workflows/python-package.yml actions
  • actions/checkout v2 composite
  • s-weigand/setup-conda v1 composite
.github/workflows/python-publish.yml actions
  • actions/checkout v2 composite
  • s-weigand/setup-conda v1 composite