Package: LZeroSpikeInference 1.0.3
Sean Jewell
LZeroSpikeInference: Exact Spike Train Inference via L0 Optimization
An implementation of algorithms described in Jewell and Witten (2017) <arxiv:1703.08644>.
Authors:
LZeroSpikeInference_1.0.3.tar.gz
LZeroSpikeInference_1.0.3.zip(r-4.7-any)LZeroSpikeInference_1.0.3.zip(r-4.6-any)LZeroSpikeInference_1.0.3.zip(r-4.5-any)
LZeroSpikeInference_1.0.3.tgz(r-4.6-any)LZeroSpikeInference_1.0.3.tgz(r-4.5-any)
LZeroSpikeInference_1.0.3.tar.gz(r-4.7-any)LZeroSpikeInference_1.0.3.tar.gz(r-4.6-any)
LZeroSpikeInference_1.0.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
LZeroSpikeInference/json (API)
| # Install 'LZeroSpikeInference' in R: |
| install.packages('LZeroSpikeInference', repos = c('https://cranhaven.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/cranhaven/cranhaven.r-universe.dev/issues
Last updated from:20b0368129 (on package/LZeroSpikeInference). Checks:7 NOTE, 2 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | NOTE | 93 | ||
| source / vignettes | OK | 129 | ||
| linux-release | NOTE | 101 | ||
| macos-release | NOTE | 80 | ||
| macos-oldrel | NOTE | 92 | ||
| windows-devel | NOTE | 56 | ||
| windows-release | NOTE | 61 | ||
| windows-oldrel | NOTE | 65 | ||
| wasm-release | OK | 73 |
Exports:cv.estimateSpikesestimateSpikessimulateAR1
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Cross-validate and optimize model parameters | cv.estimateSpikes |
| Estimate spike train, underlying calcium concentration, and changepoints based on fluorescence trace. | estimateSpikes |
| LZeroSpikeInference: LZeroSpikeInference: A package for estimating spike times from calcium imaging data using an L0 penalty | LZeroSpikeInference-package LZeroSpikeInference |
| Plot mean squared error vs. tuning parameter from the cross-validation output | plot.cvSpike |
| Plot the solution to an L0 segmentation problem | plot.estimatedSpikes |
| Plot simulated data | plot.simdata |
| Print CV results | print.cvSpike |
| Print estimated spikes | print.estimatedSpikes |
| Print simulated data | print.simdata |
| Simulate fluorescence trace based on simple AR(1) generative model | simulateAR1 |