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FastLZeroSpikeInference (version 2018.12.10)

Fast Nonconvex Deconvolution of Calcium Imaging Data

Description

Estimate spike times from calcium imaging data using an L0 penalty.

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Version

Install

install.packages('FastLZeroSpikeInference')

Monthly Downloads

9

Version

2018.12.10

License

GPL-3

Maintainer

Sean Jewell

Last Published

December 21st, 2018

Functions in FastLZeroSpikeInference (2018.12.10)

plot.simdata

Plot simulated data
FastLZeroSpikeInference

FastLZeroSpikeInference: FastLZeroSpikeInference: A package for estimating spike times from calcium imaging data using an L0 penalty
print.estimated_spikes

Print estimated spikes
estimate_calcium

Estimate underlying calcium concentration based on estimated spikes
print.simdata

Print simulated data
simulate_ar1

Simulate fluorescence trace based on simple AR(1) generative model
plot.estimated_spike_paths

Plot number of spikes vs. tuning parameter
plot.estimated_spikes

Plot the solution to an L0 segmentation problem
estimate_spike_paths

Estimate spike train, underlying calcium concentration, and changepoints based on a fluorescence trace. Automatic tuning parameter selection within a range of values [lambda_min, lambda_max]
estimate_spikes

Estimate spike train, underlying calcium concentration, and changepoints based on a fluorescence trace.
print.estimated_spike_paths

Print estimated spike path