yz22015's starred repositories

The-Art-of-Linear-Algebra

Graphic notes on Gilbert Strang's "Linear Algebra for Everyone"

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pywt

PyWavelets - Wavelet Transforms in Python

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CEBRA

Learnable latent embeddings for joint behavioral and neural analysis - Official implementation of CEBRA

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CaImAn

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

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spikeinterface

A Python-based module for creating flexible and robust spike sorting pipelines.

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elastix

Official elastix repository

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suite2p

cell detection in calcium imaging recordings

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pynapple

PYthon Neural Analysis Package :pineapple:

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obsidian-consistent-attachments-and-links

Obsidian plugin. Move note with attachments.

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rastermap

a visualization method for neural data

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NoRMCorre

Matlab routines for online non-rigid motion correction of calcium imaging data

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openai_tools

Growing collection of scripts to summarize the scientific literature using large-language models like ChatGPT.

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NeuroPyxels

NeuroPyxels (npyx) is a python library built for electrophysiologists using Neuropixels electrodes. This package stems from the need of a pythonist who really did not want to transition to MATLAB to work with Neuropixels: it features a suite of core utility functions for loading, processing and plotting Neuropixels data.

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DeepCAD-RT

DeepCAD-RT: Real-time denoising of fluorescence time-lapse imaging using deep self-supervised learning

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SUPPORT

Accurate denoising of voltage imaging data through statistically unbiased prediction, Nature Methods.

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pi2

C++ library and command-line software for processing and analysis of terabyte-scale volume images locally or on a computing cluster.

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PSID

Preferential Subspace Identification Algorithm

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Pinpoint

Multi-probe trajectory planning in an intuitive 3D environment

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NeuTu

Software package for neuron reconstruction and visualization

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zetapy

Python code implementing the ZETA-test

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ZETA

Zenith of Event-based Time-locked Anomalies

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zetatest

Parameter-free statistical testing package

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track2p

Cell tracking for longitudinal calcium imaging recordings.

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warpAnnotations

A tool to transform annotations (such as points, skeletons or meshes) between spatial datasets.

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protocolBLAST

Sample preparation and warping accuracy for correlative multimodal imaging in the mouse olfactory bulb using two-photon, synchrotron X-ray and volume electron microscopy

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XrayAssistedStaining

Code for analyzing the heavy metal accumulation during X-ray assisted staining

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BSD

Blind Sparse Deconvolution for calcium imaging.

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