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activitylabeling

timeseries wavelet featurization and latent space labeling

behavior-lite

Lightweight repository to look at results from behavioral RNAi screen. Underlying datasets currently unpublished. Contact owner for more information/access.

c3po

Contrastive Prediction of Point Process Observations

dualchannelrnn

Trainable RNN model of neuron signaling through synaptic and diffusive channels.

ecologicalavalanches

histogramoverlay

Useful function to efficiently explore the dynamics of a density function over time

kachery-cloud

ms_analysis_sam

Collection of notebooks and scripts to crate/populate spyglass tables for analysis of ms optogenetic project

neuralregeneration_review

neurode

A machine-learning framework for easy-to-use fitting of ODE models to dynamics data. Particular focus and implementation given to the dual-channel neuron signaling model from my upcoming publication

parallel_spikesorting

Notebook to helpeasily populate the spyglass spikesorting pipeline for performance boosts

pareo

PARamter Estimates from Observables: A keras-imlemented machine learning architecture for fitting parameters of non-linear ODE functions from partially-observed data

park

Planarian Activity Response Knowledgebase: a repository for statistical analysis and exploration of planarian behavior

planameterization

Planarian-parameterization. Software to segment and parameterize videos of planarian behavior.

position_tools

Tools for calculating smoothed 2D position, speed, head direction

rec_to_binaries

A python package that converts SpikeGadgets rec files in the Frank lab directory format to more useable binaries with the same directory format.

rec_to_nwb_old_files

Data Migration REC -> NWB 2.0 Service

sorting-curations

holds text files with manual curation tags for spike sorting with mountainsort4

spyglass_chris

Neuroscience data analysis framework for reproducible research built by Loren Frank Lab at UCSF

thiswormdne

Entirely computer-generated videos of worms (or whatever)

variable_hmm

package to fit dynamics of non-stationary hmm transition matrix