ecoglib: visualization and statistics for high density microecog signals

Overview

ecoglib: visualization and statistics for high density microecog signals

building workflow tox workflow codecov

This library contains high-level analysis tools for "topos" and "chronos" aspects of spatio-temporal signals (array timesries). The packages are organized for

  • ecoglib.estimation statistical estimation tools for spatial, timeseries, and general data
  • ecoglib.vis multiple plotting modules for visualizing multi-channel timeseries, spatial maps, and other results
  • ecoglib.signal_testing signal diagonstics for electrode based recordings

This library builds on top of ecogdata, which can preprocess electrode recordings from multiple file types

Install

First step: set up ecogdata following instructions here: https://github.com/miketrumpis/ecogdata

Whether you have chosen to use conda or a plain virtual environment, use pip to install ecoglib.

Choose whether to use PyQt5 or PySide2.

  • PyQt5: this is probably the best option (presently), but it is known not to work on Windows 8
  • PySide2: also works, has a less restrictive license

This choice affects the install variation, which is specified in the brackets. You can either clone & install in one step (using PyQt5 in these example, replace with "pyside2" if needed):

$ pip install "ecoglib[pyqt] @ git+https://github.com/miketrumpis/ecoglib.git"

Or, to track the repository, clone and install separately.

$ git clone https:github.com/miketrumpis/ecoglib.git
$ pip install ./ecoglib[pyqt]

Install variation for testing

To run tests, install with the [pyqt,test] variation and run

$ python -m pytest --pyargs ecoglib

Docs & demo notebooks

To build API documentation and usage demos, you must clone the repository. Then add [pyqt,docs] to the install command to get Sphinx and other tools. You can now run:

$ cd docs
$ make all

Alternatively, install jupyter and run the notebooks in docs/source/usage_demos interactively.

nptsne is a numpy compatible python binary package that offers a number of APIs for fast tSNE calculation.

nptsne nptsne is a numpy compatible python binary package that offers a number of APIs for fast tSNE calculation and HSNE modelling. For more detail s

Biomedical Visual Analytics Unit LUMC - TU Delft 29 Jul 05, 2022
Moscow DEG 2021 elections plots

Построение графиков на основе публичных данных о ДЭГ в Москве в 2021г. Описание Скрипты в данном репозитории позволяют собственноручно построить графи

9 Jul 15, 2022
WhatsApp Chat Analyzer is a WebApp and it can be used by anyone to analyze their chat. 😄

WhatsApp-Chat-Analyzer You can view the working project here. WhatsApp chat Analyzer is a WebApp where anyone either tech or non-tech person can analy

Prem Chandra Singh 26 Nov 02, 2022
Simple CLI python app to show a stocks graph performance. Made with Matplotlib and Tiingo.

stock-graph-python Simple CLI python app to show a stocks graph performance. Made with Matplotlib and Tiingo. Tiingo API Key You will need to add your

Toby 3 May 14, 2022
PyFlow is a general purpose visual scripting framework for python

PyFlow is a general purpose visual scripting framework for python. State Base structure of program implemented, such things as packages disco

1.8k Jan 07, 2023
Flow-based visual scripting for Python

A simple visual node editor for Python Ryven combines flow-based visual scripting with Python. It gives you absolute freedom for your nodes and a simp

Leon Thomm 3.1k Jan 06, 2023
Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns.

Make Complex Heatmaps Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. H

Zuguang Gu 973 Jan 09, 2023
Simple and lightweight Spotify Overlay written in Python.

Simple Spotify Overlay This is a simple yet powerful Spotify Overlay. About I have been looking for something like this ever since I got Spotify. I th

27 Sep 03, 2022
Some useful extensions for Matplotlib.

mplx Some useful extensions for Matplotlib. Contour plots for functions with discontinuities plt.contour mplx.contour(max_jump=1.0) Matplotlib has pro

Nico Schlömer 519 Dec 30, 2022
PolytopeSampler is a Matlab implementation of constrained Riemannian Hamiltonian Monte Carlo for sampling from high dimensional disributions on polytopes

PolytopeSampler PolytopeSampler is a Matlab implementation of constrained Riemannian Hamiltonian Monte Carlo for sampling from high dimensional disrib

9 Sep 26, 2022
Drag’n’drop Pivot Tables and Charts for Jupyter/IPython Notebook, care of PivotTable.js

pivottablejs: the Python module Drag’n’drop Pivot Tables and Charts for Jupyter/IPython Notebook, care of PivotTable.js Installation pip install pivot

Nicolas Kruchten 512 Dec 26, 2022
The open-source tool for building high-quality datasets and computer vision models

The open-source tool for building high-quality datasets and computer vision models. Website • Docs • Try it Now • Tutorials • Examples • Blog • Commun

Voxel51 2.4k Jan 07, 2023
🐍PyNode Next allows you to easily create beautiful graph visualisations and animations

PyNode Next A complete rewrite of PyNode for the modern era. Up to five times faster than the original PyNode. PyNode Next allows you to easily create

ehne 3 Feb 12, 2022
EPViz is a tool to aid researchers in developing, validating, and reporting their predictive modeling outputs.

EPViz (EEG Prediction Visualizer) EPViz is a tool to aid researchers in developing, validating, and reporting their predictive modeling outputs. A lig

Jeff 2 Oct 19, 2022
A set of three functions, useful in geographical calculations of different sorts

GreatCircle A set of three functions, useful in geographical calculations of different sorts. Available for PHP, Python, Javascript and Ruby. Live dem

72 Sep 30, 2022
Automatically Visualize any dataset, any size with a single line of code. Created by Ram Seshadri. Collaborators Welcome. Permission Granted upon Request.

AutoViz Automatically Visualize any dataset, any size with a single line of code. AutoViz performs automatic visualization of any dataset with one lin

AutoViz and Auto_ViML 1k Jan 02, 2023
Data Visualizations for the #30DayChartChallenge

The #30DayChartChallenge This repository contains all the charts made for the #30DayChartChallenge during the month of April. This project aims to exp

Isaac Arroyo 7 Sep 20, 2022
🌀❄️🌩️ This repository contains some examples for creating 2d and 3d weather plots using matplotlib and cartopy libraries in python3.

Weather-Plotting 🌀 ❄️ 🌩️ This repository contains some examples for creating 2d and 3d weather plots using matplotlib and cartopy libraries in pytho

Giannis Dravilas 21 Dec 10, 2022
A python-generated website for visualizing the novel coronavirus (COVID-19) data for Greece.

COVID-19-Greece A python-generated website for visualizing the novel coronavirus (COVID-19) data for Greece. Data sources Data provided by Johns Hopki

Isabelle Viktoria Maciohsek 23 Jan 03, 2023
Mathematical learnings with Lean, for those of us who wish we knew more of both!

Lean for the Inept Mathematician This repository contains source files for a number of articles or posts aimed at explaining bite-sized mathematical c

Julian Berman 8 Feb 14, 2022