Package: jointseg 1.0.2

jointseg: Joint Segmentation of Multivariate (Copy Number) Signals

Methods for fast segmentation of multivariate signals into piecewise constant profiles and for generating realistic copy-number profiles. A typical application is the joint segmentation of total DNA copy numbers and allelic ratios obtained from Single Nucleotide Polymorphism (SNP) microarrays in cancer studies. The methods are described in Pierre-Jean, Rigaill and Neuvial (2015) <doi:10.1093/bib/bbu026>.

Authors:Morgane Pierre-Jean [aut, cre], Pierre Neuvial [aut], Guillem Rigaill [aut]

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jointseg.pdf |jointseg.html✨
jointseg/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/mpierrejean/jointseg/issues

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

On CRAN:

6.49 score 6 stars 2 packages 43 scripts 349 downloads 25 exports 3 dependencies

Last updated 6 years agofrom:5b7ab68d33. Checks:OK: 9. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 07 2024
R-4.5-win-x86_64OKNov 07 2024
R-4.5-linux-x86_64OKNov 07 2024
R-4.4-win-x86_64OKNov 07 2024
R-4.4-mac-x86_64OKNov 07 2024
R-4.4-mac-aarch64OKNov 07 2024
R-4.3-win-x86_64OKNov 07 2024
R-4.3-mac-x86_64OKNov 07 2024
R-4.3-mac-aarch64OKNov 07 2024

Exports:anotherBkpbinMissingValuesdefaultWeightsdoCBSdoDynamicProgrammingdoGFLarsdoPSCBSdoPSCNdoRBSestimateSdFpsngetCopyNumberDataByResamplinggetTpFpjointSegleftMultiplyByInvXAtXAleftMultiplyByXtmodelSelectionmultiplyXtXBySparseoneBkpplotSegpruneByDPPSSegrandomProfilesegmentByGFLarssegmentByRBS

Dependencies:acnrDNAcopymatrixStats

Generating realistic data with known truth using the jointseg package

M. Pierre-Jean, G. Rigaill, P. Neuvial

Rendered fromdataGeneration.Rmdusingknitr::rmarkdownon Nov 07 2024.

Last update: 2019-01-07
Started: 2016-12-16

PSSeg: Parent-Specifc copy number segmentation

M. Pierre-Jean, G. Rigaill, P. Neuvial

Rendered fromPSSeg.Rmdusingknitr::rmarkdownon Nov 07 2024.

Last update: 2017-11-30
Started: 2016-12-15