Package: PeakSegOptimal 2024.10.1

PeakSegOptimal: Optimal Segmentation Subject to Up-Down Constraints

Computes optimal changepoint models using the Poisson likelihood for non-negative count data, subject to the PeakSeg constraint: the first change must be up, second change down, third change up, etc. For more info about the models and algorithms, read "Constrained Dynamic Programming and Supervised Penalty Learning Algorithms for Peak Detection" <https://jmlr.org/papers/v21/18-843.html> by TD Hocking et al.

Authors:Toby Dylan Hocking [aut, cre]

PeakSegOptimal_2024.10.1.tar.gz
PeakSegOptimal_2024.10.1.zip(r-4.7)PeakSegOptimal_2024.10.1.zip(r-4.6)PeakSegOptimal_2024.10.1.zip(r-4.5)
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PeakSegOptimal_2024.10.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
PeakSegOptimal/json (API)
NEWS

# Install 'PeakSegOptimal' in R:
install.packages('PeakSegOptimal', repos = c('https://tdhock.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tdhock/peaksegoptimal/issues

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:

On CRAN:

Conda:

cpp

3.65 score 6 stars 37 scripts 287 downloads 7 exports 19 dependencies

Last updated from:40b762a4ac. Checks:13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK163
linux-devel-x86_64OK167
source / vignettesOK379
linux-release-arm64OK178
linux-release-x86_64OK155
macos-release-arm64OK113
macos-release-x86_64OK352
macos-oldrel-arm64OK122
macos-oldrel-x86_64OK252
windows-develOK324
windows-releaseOK380
windows-oldrelOK287
wasm-releaseOK104

Exports:oracleModelComplexityPeakSegFPOPPeakSegFPOPchromPeakSegPDPAPeakSegPDPAchromPeakSegPDPAInfPoissonLoss

Dependencies:clicpp11data.tablefarverggplot2gluegtableisobandlabelinglifecyclepenaltyLearningR6RColorBrewerrlangS7scalesvctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
H3K4me3_PGP_immune ChIP-seq data set chunk 24H3K4me3_PGP_immune_chunk24
H3K4me3_XJ_immune chunk 1H3K4me3_XJ_immune_chunk1
oracleModelComplexityoracleModelComplexity
PeakSegFPOPPeakSegFPOP
PeakSegFPOPchromPeakSegFPOPchrom
PeakSegPDPAPeakSegPDPA
PeakSegPDPAchromPeakSegPDPAchrom
PeakSegPDPAInfPeakSegPDPAInf
PoissonLossPoissonLoss