jmmanley
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Review target for PinkFreud-2004/SuheylGulenc-2026-BrainWide-Intrinsic-Timescales
Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
Accurate denoising of voltage imaging data through statistically unbiased prediction, Nature Methods.
Analysis of the dimensionality of neuronal population dynamics as a function of neuron number
🚀 Efficient implementations for emerging model architectures
A library for efficient similarity search and clustering of dense vectors.
A Julia package for fitting (statistical) mixed-effects models
Regression models for beta distributed responses in Julia
Mesoscale volumetric light-field (MesoLF) imaging
Seeded Iterative Demixing (SID) of neuronal activity recordings made using Light Field Microscopy (LFM)
A Python 3 library making time series data mining tasks, utilizing matrix profile algorithms, accessible to everyone.
Pipeline based on NoRMCorre and CaImAn for segmenting large FOV, volumetric Light Bead Microscopy data.
Canonical Correlation Analysis Zoo: A collection of Regularized, Deep Learning based, Kernel, and Probabilistic methods in a scikit-learn style framework
Matlab pipeline for semi-supervised mouse behavioral classification
A tutorial and code for running unsupervised behavioral analysis on various animal pose data
Facemap: Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also includes singular value decomposition (SVD) of behavioral videos.
Scripts for controlling treadmill and stimuli delivery.
Modified Python 3.0 implementation of MotionMapper (https://github.com/gordonberman/MotionMapper)
Urai AE, Doiron B, Leifer AM & Churchland AK (2022) Large-scale neural recordings call for new insights to link brain and behavior. Nature Neuroscience
Recordings of 10k neurons during spontaneous behaviors
napari: a fast, interactive, multi-dimensional image viewer for python
A deep learning framework for multi-animal pose tracking.
Responses of 10,000 neurons to 2,800 natural images
Automated Raspberry Pi based operant conditioning of vocal production behaviors in mice and birds.