_            _    _        _         _
      /\ \         /\ \ /\ \     /\_\      / /\
      \_\ \       /  \ \\ \ \   / / /     / /  \
      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
     / /_ \ \   / / /\ \ \\ \___/ /     / / /\ \___\
    / / /\ \ \ / / /  \ \_\\ \ \_/      \ \ \ \/___/
   / / /  \/_// / /   / / / \ \ \        \ \ \
  / / /      / / /   / / /   \ \ \   _    \ \ \
 / / /      / / /___/ / /     \ \ \ /_/\__/ / /
/_/ /      / / /____\/ /       \ \_\\ \/___/ /
\_\/       \/_________/         \/_/ \_____\/

Enter the query into the form above. You can look for specific version of a package by using @ symbol like this: gcc@10.

API method:

GET /api/packages?search=hello&page=1&limit=20

where search is your query, page is a page number and limit is a number of items on a single page. Pagination information (such as a number of pages and etc) is returned in response headers.

If you'd like to join our channel webring send a patch to ~whereiseveryone/toys@lists.sr.ht adding your channel as an entry in channels.scm.


python-replay-trajectory-classification 1.4.1-0.9f1216d
Propagated dependencies: python-dask@2024.12.1 python-distributed@2024.12.1 python-joblib@1.5.2 python-matplotlib@3.8.2 python-networkx@3.4.2 python-numba@0.61.0 python-numpy@1.26.4 python-pandas@2.2.3 python-patsy@1.0.1 python-regularized-glm@1.0.2 python-scikit-image@0.23.2 python-scikit-learn@1.7.0 python-scipy@1.12.0 python-seaborn@0.13.2 python-statsmodels@0.14.4 python-tqdm@4.67.1 python-track-linearization@2.4.0 python-xarray@2023.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/Eden-Kramer-Lab/replay_trajectory_classification
Licenses: Expat
Build system: pyproject
Synopsis: State space models for decoding hippocampal trajectories
Description:

replay_trajectory_classification is a Python package for decoding spatial position represented by neural activity and categorizing the type of trajectory.

It has several advantages over decoders typically used to characterize hippocampal data:

  • It allows for moment-by-moment estimation of position using small temporal time bins which allow for rapid movement of neural position and makes fewer assumptions about what downstream cells can integrate.

  • The decoded trajectories can change direction and are not restricted to constant velocity trajectories.

  • The decoder can use spikes from spike-sorted cells or use clusterless spikes and their associated waveform features to decode.

  • The decoder can categorize the type of neural trajectory and give an estimate of the confidence of the model in the type of trajectory.

  • Proper handling of complex 1D linearized environments.

  • Ability to extract and decode 2D environments.

  • Easily installable, documented code with tutorials on how to use the code.

  • Fast computation using GPUs.

python-mne-features 0.3.1
Propagated dependencies: python-mne@1.11.0 python-numba@0.61.0 python-numpy@1.26.4 python-pandas@2.2.3 python-pywavelets@1.8.0 python-scikit-learn@1.7.0 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://mne.tools/mne-features
Licenses: Modified BSD
Build system: pyproject
Synopsis: Software for extracting features from multivariate time series
Description:

This package provides code for feature extraction with M/EEG data.

python-elephant 1.1.1-0.db5a5f0
Propagated dependencies: python-jinja2@3.1.2 python-neo@0.14.3 python-numpy@1.26.4 python-quantities@0.16.4 python-scikit-learn@1.7.0 python-scipy@1.12.0 python-six@1.17.0 python-statsmodels@0.14.4 python-tqdm@4.67.1
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://neuralensemble.org/elephant/
Licenses: Modified BSD
Build system: pyproject
Synopsis: Analysis of electrophysiology data in Python
Description:

Elephant (Electrophysiology Analysis Toolkit) is an open-source, community centered library for the analysis of electrophysiological data in the Python programming language. The focus of Elephant is on generic analysis functions for spike train data and time series recordings from electrodes, such as the local field potentials (LFP) or intracellular voltages. In addition to providing a common platform for analysis code from different laboratories, the Elephant project aims to provide a consistent and homogeneous analysis framework that is built on a modular foundation. Elephant is the direct successor to Neurotools and maintains ties to complementary projects such as OpenElectrophy and spykeviewer.

python-pyriemann 0.10
Propagated dependencies: python-joblib@1.5.2 python-matplotlib@3.8.2 python-numpy@1.26.4 python-scikit-learn@1.7.0 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://pyriemann.readthedocs.io
Licenses: Modified BSD
Build system: pyproject
Synopsis: Machine learning for multivariate data with Riemannian geometry
Description:

pyRiemann is a Python machine learning package based on scikit-learn API. It provides a high-level interface for processing and classification of real (resp. complex)-valued multivariate data through the Riemannian geometry of symmetric (resp. Hermitian) positive definite (SPD) (resp. HPD) matrices.

python-sleepecg 0.5.9
Propagated dependencies: python-edfio@0.4.10 python-joblib@1.5.2 python-matplotlib@3.8.2 python-numba@0.61.0 python-numpy@1.26.4 python-pyyaml@6.0.2 python-requests@2.32.5 python-scipy@1.12.0 python-tqdm@4.67.1 python-wfdb@4.3.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://sleepecg.readthedocs.io
Licenses: Modified BSD
Build system: pyproject
Synopsis: Sleep stage classification using ECG data
Description:

This package provides a library for sleep stage classification using ECG data.

python-tensorpac 0.6.5-1.ac9058f
Propagated dependencies: python-joblib@1.5.2 python-matplotlib@3.8.2 python-mne@1.11.0 python-numba@0.61.0 python-numpy@1.26.4 python-pandas@2.2.3 python-scipy@1.12.0 python-statsmodels@0.14.4
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: http://etiennecmb.github.io/tensorpac/
Licenses: Modified BSD
Build system: pyproject
Synopsis: Tensor-based Phase-Amplitude Coupling
Description:

Tensor-based Phase-Amplitude Coupling.

python-curryreader 0.1.2
Propagated dependencies: python-matplotlib@3.8.2 python-numpy@1.26.4
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/mne-tools/curry-python-reader
Licenses: Modified BSD
Build system: pyproject
Synopsis: File reader for Compumedics Neuroscan data formats
Description:

This is an open-source tool which allows to load CURRY data into Python. It supports: raw float (.cdt), ascii (.cdt), legacy raw float (.dat) and legacy ascii (.dat).

python-mne-lsl 1.12.0
Dependencies: liblsl@1.17.5
Propagated dependencies: python-click@8.1.8 python-mne@1.11.0 python-numpy@1.26.4 python-packaging@25.0 python-pooch@1.8.1 python-psutil@7.0.0 python-pyqtgraph@0.13.7 python-qtpy@2.4.3 python-scipy@1.12.0 python-tomli@2.2.1
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://mne.tools/mne-lsl
Licenses: Modified BSD
Build system: pyproject
Synopsis: Real-time framework integrated with MNE-Python for online neuroscience research through LSL-compatible devices
Description:

MNE-LSL (Documentation website) provides a real-time brain signal streaming framework. MNE-LSL contains an improved python-binding for the Lab Streaming Layer C++ library, mne_lsl.lsl, replacing pylsl. This low-level binding is used in high-level objects to interact with LSL streams.

python-pyxdf 1.17.1
Propagated dependencies: python-numpy@1.26.4
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/xdf-modules/pyxdf
Licenses: FreeBSD
Build system: pyproject
Synopsis: Python library for importing XDF (Extensible Data Format)
Description:

XDF is a general-purpose container format for multi-channel time series data with extensive associated meta information. XDF is tailored towards biosignal data such as EEG, EMG, EOG, ECG, GSR, MEG, but it can also handle data with high sampling rate (like audio) or data with a high number of channels (like fMRI or raw video). Meta information is stored as XML.

spikeinterface-gui 0.12.0
Propagated dependencies: python-markdown@3.10 python-pyqtgraph@0.13.7 python-pyside-6@6.9.2 python-spikeinterface@0.103.2
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://spikeinterface-gui.readthedocs.io/
Licenses: Expat
Build system: pyproject
Synopsis: GUI for spikeinterface objects
Description:

This package provides a cross-platform interactive viewer to inspect the final results and quality of any spike sorter supported by spikeinterface.

python-pybv 0.7.6
Propagated dependencies: python-numpy@1.26.4
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://pybv.readthedocs.io
Licenses: Modified BSD
Build system: pyproject
Synopsis: I/O utility for the BrainVision data format
Description:

pybv is a lightweight I/O utility for the BrainVision data format. The BrainVision data format is a recommended data format for use in the Brain Imaging Data Structure.

python-antio 0.6.1
Propagated dependencies: python-click@8.1.8 python-numpy@1.26.4 python-packaging@25.0 python-psutil@7.0.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/mscheltienne/antio
Licenses: GPL 3
Build system: pyproject
Synopsis: I/O library for the CNT format from ANT Neuro
Description:

This package provides I/O functions for the CNT format from ANT Neuro.

python-regularized-glm 1.0.2
Propagated dependencies: python-numpy@1.26.4 python-scipy@1.12.0 python-statsmodels@0.14.4
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/Eden-Kramer-Lab/regularized_glm
Licenses: Expat
Build system: pyproject
Synopsis: L2-penalized generalized linear models
Description:

A simple python package for fitting L2- and smoothing-penalized generalized linear models. Built primarily because the statsmodels GLM fit_regularized method is built to do elastic net (combination of L1 and L2 penalities), but if you just want to do an L2 or a smoothing penalty (like in generalized additive models), using a penalized iteratively reweighted least squares (p-IRLS) is much faster.

python-picard 0.8.1
Propagated dependencies: python-numpy@1.26.4 python-scikit-learn@1.7.0 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://mind-inria.github.io/picard
Licenses: Modified BSD
Build system: pyproject
Synopsis: Preconditoned ICA for Real Data
Description:

Picard provides Python/Octave/MATLAB code for the preconditionned ICA for real data.

python-mne-bids 0.18.0
Propagated dependencies: python-curryreader@0.1.2 python-defusedxml@0.7.1 python-edfio@0.4.10 python-eeglabio@0.1.2 python-filelock@3.16.1 python-h5py@3.13.0 python-matplotlib@3.8.2 python-mne@1.11.0 python-nibabel@5.3.2 python-numpy@1.26.4 python-pandas@2.2.3 python-pybv@0.7.6 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://mne.tools/mne-bids
Licenses: Modified BSD
Build system: pyproject
Synopsis: Organize MEG, EEG, and iEEG data according to the BIDS specification
Description:

MNE-BIDS is a Python package that allows you to read and write BIDS-compatible datasets with the help of MNE-Python.

python-yasa 0.6.5
Propagated dependencies: python-antropy@0.1.9 python-ipywidgets@8.1.2 python-joblib@1.5.2 python-lspopt@1.4.0 python-matplotlib@3.8.2 python-mne@1.11.0 python-numba@0.61.0 python-numpy@1.26.4 python-pandas@2.2.3 python-pyriemann@0.10 python-scikit-learn@1.7.0 python-scipy@1.12.0 python-seaborn@0.13.2 python-sleepecg@0.5.9 python-tensorpac@0.6.5-1.ac9058f
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://yasa-sleep.org/
Licenses: Modified BSD
Build system: pyproject
Synopsis: Yet Another Spindle Algorithm (YASA)
Description:

YASA is a Python package to analyze polysomnographic sleep recordings.

python-bycycle 1.2.0
Propagated dependencies: python-matplotlib@3.8.2 python-neurodsp@2.3.0 python-numpy@1.26.4 python-pandas@2.2.3 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://bycycle-tools.github.io/
Licenses: ASL 2.0
Build system: pyproject
Synopsis: Cycle-by-cycle analyses of neural oscillations
Description:

bycycle is a tool for quantifying features of neural oscillations in the time domain, as opposed to the frequency domain, using a cycle-by-cycle approach.

python-pynwb 3.1.3
Propagated dependencies: python-dateutil@2.9.0 python-h5py@3.13.0 python-hdmf@4.1.2 python-numpy@1.26.4 python-pandas@2.2.3 python-platformdirs@4.3.6
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://pynwb.readthedocs.io
Licenses: Modified BSD
Build system: pyproject
Synopsis: Package for working with Neurodata stored in the NWB format
Description:

PyNWB is a Python package for working with NWB files. It provides a high-level API for efficiently working with Neurodata stored in the NWB format.

python-wfdb 4.3.0
Propagated dependencies: python-aiohttp@3.11.11 python-fsspec@2025.9.0 python-matplotlib@3.8.2 python-numpy@1.26.4 python-pandas@2.2.3 python-requests@2.32.5 python-scipy@1.12.0 python-soundfile@0.13.1
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://wfdb.readthedocs.io
Licenses: Expat
Build system: pyproject
Synopsis: Tools for reading, writing, and processing physiologic signals and annotations
Description:

A Python-native package for reading, writing, processing, and plotting physiologic signal and annotation data. The core I/O functionality is based on the Waveform Database (WFDB) specifications.

python-phylib 2.7.0-0.68b3d7e
Propagated dependencies: python-dask@2024.12.1 python-joblib@1.5.2 python-mtscomp@1.0.2 python-numpy@1.26.4 python-requests@2.32.5 python-responses@0.25.3 python-scipy@1.12.0 python-toolz@1.0.0 python-tqdm@4.67.1
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/cortex-lab/phylib
Licenses: Modified BSD
Build system: pyproject
Synopsis: Electrophysiological data analysis library for Python
Description:

This package provides an electrophysiological data analysis library for Python.

python-position-tools 0.2.2
Propagated dependencies: python-numpy@1.26.4 python-scipy@1.12.0 python-tqdm@4.67.1
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/LorenFrankLab/position_tools
Licenses: Expat
Build system: pyproject
Synopsis: Tools for calculating smoothed 2D position, speed, head direction
Description:

This package provides tools for calculating smoothed 2D position, speed, head direction.

python-track-linearization 2.4.0
Propagated dependencies: python-dask@2024.12.1 python-matplotlib@3.8.2 python-networkx@3.4.2 python-numpy@1.26.4 python-pandas@2.2.3 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/LorenFrankLab/track_linearization
Licenses: Expat
Build system: pyproject
Synopsis: Linearize 2D position to 1D using Hidden Markov Models
Description:

track_linearization is a Python package for mapping animal movement on complex track environments (mazes, figure-8s, T-mazes) into simplified 1D representations. It uses Hidden Markov Models to handle noisy position data and provides powerful tools for analyzing spatial behavior in neuroscience experiments.

python-mne-faster 1.2.2
Propagated dependencies: python-mne@1.11.0 python-numpy@1.26.4 python-scipy@1.12.0
Channel: guix-science
Location: guix-science/packages/electrophysiology.scm (guix-science packages electrophysiology)
Home page: https://github.com/wmvanvliet/mne-faster
Licenses: Modified BSD
Build system: pyproject
Synopsis: Automatic EEG bad channel/epoch/ICA-component detection using FASTER
Description:

FASTER is a fully automated, unsupervised method for processing of high density EEG data.

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Total results: 69112