FMirabella

FMirabella's Stars

• flatironinstitute/CaImAn

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

  Language:Python637370

• MouseLand/rastermap

  a visualization method for neural data

  Language:Python18845

• RichieHakim/ROICaT

  Region Of Interest Classification and Tracking

  Language:Python136

• MouseLand/suite2p

  cell detection in calcium imaging recordings

  Language:Jupyter Notebook354241

• lahammond/RESPAN

  Robust, accurate, and unbiased quantification of neurons and dendritic spines.

  Language:Python41

• mwilsonUCSD/multimodal_organoids

  Language:MATLAB1

• Julie-Fabre/awesome_neuropixels

  A curated list of awesome Neuropixels resources.

  7514

• HelmchenLabSoftware/Centripetal_propagation_astrocytes

  Custom code (Python or Matlab) to compute centripetal propagation from astrocytic calcium recordings using pixel-wise correlation functions

  Language:MATLAB8

• smestern/pypatchOTDA

  Language:Python2

• XinyueMa-neuro/ElecFeX

  MATLAB-based electrophysiological feature extraction toolkit

  9

• jburrone/Horton_Burrone_2024

  Analysis Functions From Horton et al, 2024 Cell Reports paper titled "Excitatory and inhibitory synapses show a tight subcellular correlation that weakens over development"

  Language:Python1

• SpikeInterface/probeinterface

  Python package to handle probe layout, geometry and wiring to device.

  Language:Python5444

• SpikeInterface/SpikeInterface-Hackathon-Edinburgh-May24

  Repo for SpikeInterface Hackathon in Edinburgh - May24

  41

• Julie-Fabre/bombcell

  Automated quality control, curation and neuron classification of spike-sorted electrophysiology data

  Language:MATLAB11528

• flatironinstitute/dendro-old

  Analyze neuroscience data in the cloud

  Language:TypeScript192

• SAND-Lab/MEA-NAP

  MEA-NAP. A streamlined diagnostic and analytic tool for data obtained using microelectrode arrays.

  Language:Jupyter Notebook136

• networkx/networkx

  Network Analysis in Python

  Language:Python14.9k3.3k

• berenslab/neural_data_science

  Contains programming labs and lecture notes for the lecture "Neural Data Science"

  Language:Jupyter Notebook9723

• berenslab/mini-atlas

  Phenotypic variation of transcriptomic cell types in mouse motor cortex

  Language:Jupyter Notebook2410

• ScaDS/BIDS-lecture-2024

  Training resources for Students at Uni Leipzig who want to dive into bio-image data science with Python. The material will develop between April and July 2024

  Language:Jupyter Notebook3819

• HelmchenLabSoftware/Cascade

  Calibrated inference of spiking from calcium ΔF/F data using deep networks

  Language:Jupyter Notebook12132

• SynPuCo/SynapseCounter

  Synapse Counter plug-in for ImageJ, developed by Egor Dzyubenko and Andrey Rozenberg, is a helpful scientific tool designed for synapse formation studies. It is developed for rapid, automatic, unbiased quantification of synaptic puncta revealed by synaptic marker proteins fluorescence.

  Language:Java61

• JaneliaSciComp/Wavesurfer

  A Matlab application for electrophysiology data analysis

  Language:MATLAB2111

• Hjorthmedh/SynD

  SynD - Synapse Detector

  Language:MATLAB31

• SpikeInterface/spikeinterface

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

  Language:Python521186

• mhhennig/HS2

  Software for high density electrophysiology

  Language:Jupyter Notebook2617

• LofNaDI/waveformAnalysis

  Language:MATLAB2

• fieldtrip/fieldtrip

  The MATLAB toolbox for MEG, EEG and iEEG analysis

  Language:MATLAB845721

• danamics/UMS2K

  UltraMegaSort2000 - Spike sorting and quality metrics for extracellular spike data

  Language:Matlab105

• flatironinstitute/ironclust

  Spike sorting software being developed at Flatiron Institute, based on JRCLUST (Janelia Rocket Cluster)

  Language:Jupyter Notebook287