Package: timeOmics 1.19.0

Antoine Bodein

timeOmics: Time-Course Multi-Omics data integration

timeOmics is a generic data-driven framework to integrate multi-Omics longitudinal data measured on the same biological samples and select key temporal features with strong associations within the same sample group. The main steps of timeOmics are: 1. Plaform and time-specific normalization and filtering steps; 2. Modelling each biological into one time expression profile; 3. Clustering features with the same expression profile over time; 4. Post-hoc validation step.

Authors:Antoine Bodein [aut, cre], Olivier Chapleur [aut], Kim-Anh Le Cao [aut], Arnaud Droit [aut]

timeOmics_1.19.0.tar.gz
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timeOmics.pdf |timeOmics.html✨
timeOmics/json (API)

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

Peer review:

Bug tracker:https://github.com/abodein/timeomics/issues

Datasets:

    On BioConductor:timeOmics-1.19.0(bioc 3.21)timeOmics-1.18.0(bioc 3.20)

    clusteringfeatureextractiontimecoursedimensionreductionsoftwaresequencingmicroarraymetabolomicsmetagenomicsproteomicsclassificationregressionimmunooncologygenepredictionmultiplecomparisonclusterintegrationmulti-omicstime-series

    6.33 score 24 stars 10 scripts 202 downloads 1 mentions 14 exports 86 dependencies

    Last updated 23 days agofrom:6546b5fc22. Checks:OK: 1 WARNING: 6. Indexed: yes.

    TargetResultDate
    Doc / VignettesOKNov 03 2024
    R-4.5-winWARNINGNov 03 2024
    R-4.5-linuxWARNINGNov 03 2024
    R-4.4-winWARNINGNov 03 2024
    R-4.4-macWARNINGNov 03 2024
    R-4.3-winWARNINGNov 03 2024
    R-4.3-macWARNINGNov 03 2024

    Exports:get_demo_clusterget_demo_silhouettegetClustergetNcompgetSilhouettegetUpDownClusterlmms.filter.linesplotLongproportionalityremove.low.cvtuneCluster.block.splstuneCluster.spcatuneCluster.splsunscale

    Dependencies:backportsbase64encBHBiocParallelbslibcachemcheckmateclicodetoolscolorspacecorpcorcpp11digestdplyrellipseevaluatefansifarverfastmapfontawesomeformatRfsfutile.loggerfutile.optionsgenericsggplot2ggrepelgluegridExtragsignalgtablehighrhtmltoolshtmlwidgetsigraphisobandjquerylibjsonliteknitrlabelinglambda.rlatticelifecyclelmtestmagrittrMASSMatrixmatrixStatsmemoisemgcvmimemixOmicsmunsellnlmepillarpkgconfigplyrpracmapurrrR6rappdirsrARPACKRColorBrewerRcppRcppEigenreshape2rglrlangrmarkdownRSpectrasassscalessnowstringistringrtibbletidyrtidyselecttinytexutf8vctrsviridisLitewithrxfunyamlzoo

    timeOmics

    Antoine Bodein, Olivier Chapleur, Kim-Anh Lê Cao, Arnaud Droit

    Rendered fromvignette.Rmdusingknitr::rmarkdownon Nov 03 2024.

    Last update: 2024-04-09
    Started: 2019-09-23