DynClust: Denoising and clustering for dynamical image sequence (2D or 3D)+T

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DynClust is a two-stage procedure for the denoising and clustering of stack of noisy images acquired over time. Clustering only assumes that the data contain an unknown but small number of dynamic features. The method first denoises the signals using local spatial and full temporal information. The clustering step uses the previous output to aggregate voxels based on the knowledge of their spatial neighborhood. Both steps use a single keytool based on the statistical comparison of the difference of two signals with the null signal. No assumption is therefore required on the shape of the signals. The data are assumed to be normally distributed (or at least follow a symmetric distribution) with a known constant variance. Working pixelwise, the method can be time-consuming depending on the size of the data-array but harnesses the power of multicore cpus.

Author
Yves Rozenholc (MAP5, Univ. Paris Descartes), Christophe Pouzat (MAP5, Univ. Paris Descartes) and Tiffany Lieury (Cerebral Physiology lab, Univ. Paris Descartes)
Date of publication
2014-04-25 11:02:51
Maintainer
Yves Rozenholc <yves.rozenholc@parisdescartes.fr>
License
MIT + file LICENSE
Version
3.13

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Man pages

adu340_4small
Calcium-imaging dataset using Fura-2
DynClust-package
Denoising and clustering for dynamical image sequence (2D or...
GetClusteringResults
Get clustering step result
GetDenoisingResults
Get denoising step result
MultiTestH0
Statistical test of zero mean for dynamics
RunClustering
Clustering of a dynamical image sequence
RunDenoising
Denoising step of a dynamical image sequence

Files in this package

DynClust
DynClust/NAMESPACE
DynClust/data
DynClust/data/adu340_4small.rda
DynClust/R
DynClust/R/GetDenoisingResults.R
DynClust/R/RunClustering.R
DynClust/R/adu340_4small.R
DynClust/R/GetClusteringResults.R
DynClust/R/RunDenoising.R
DynClust/R/MultiTestH0.R
DynClust/R/DynClust-package.R
DynClust/MD5
DynClust/DESCRIPTION
DynClust/man
DynClust/man/MultiTestH0.Rd
DynClust/man/RunClustering.Rd
DynClust/man/DynClust-package.Rd
DynClust/man/GetDenoisingResults.Rd
DynClust/man/adu340_4small.Rd
DynClust/man/GetClusteringResults.Rd
DynClust/man/RunDenoising.Rd
DynClust/LICENSE