Package: LinkHD 1.21.0

"Laura M Zingaretti"

LinkHD: LinkHD: a versatile framework to explore and integrate heterogeneous data

Here we present Link-HD, an approach to integrate heterogeneous datasets, as a generalization of STATIS-ACT (“Structuration des Tableaux A Trois Indices de la Statistique–Analyse Conjointe de Tableaux”), a family of methods to join and compare information from multiple subspaces. However, STATIS-ACT has some drawbacks since it only allows continuous data and it is unable to establish relationships between samples and features. In order to tackle these constraints, we incorporate multiple distance options and a linear regression based Biplot model in order to stablish relationships between observations and variable and perform variable selection.

Authors:Laura M. Zingaretti [aut, cre]

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LinkHD.pdf |LinkHD.html
LinkHD/json (API)

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

Peer review:

Datasets:

On BioConductor:LinkHD-1.21.0(bioc 3.21)LinkHD-1.20.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

classificationmultiplecomparisonregressionsoftware

4.00 score 2 scripts 196 downloads 1 mentions 21 exports 123 dependencies

Last updated 23 days agofrom:bdab22c9a4. Checks:OK: 1 WARNING: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 17 2024
R-4.5-winWARNINGNov 17 2024
R-4.5-linuxWARNINGNov 17 2024
R-4.4-winWARNINGNov 17 2024
R-4.4-macWARNINGNov 17 2024
R-4.3-winWARNINGNov 17 2024
R-4.3-macWARNINGNov 17 2024

Exports:compromise_coordsCompromise_matrixCompromisePlotcorrelCorrelationPlotdABDataProcessingEuclid_ImGlobalPlotInertia_compInertia_RVLinkDataOTU2TaxaRead_DataRQOsign_valuesTrajectoriesVar_coordinatesVariablesVarSelectionVarTable

Dependencies:abindaskpassbackportsBiobaseBiocBaseUtilsBiocGenericsbitbit64bootbroomcarcarDatacellrangerclicliprclustercolorspacecorrplotcowplotcpp11crayoncurldata.tableDelayedArrayDerivdoBydplyremmeansestimabilityfansifarverforcatsforeignFormulagenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2ggpubrggrepelggsciggsignifgluegridExtragtablehavenhmshttrIRangesisobandjsonlitelabelinglatticelifecyclelme4magrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmgcvmicrobenchmarkmimeminqamodelrMultiAssayExperimentmunsellmvtnormnlmenloptrnnetnumDerivopensslpbkrtestpermutepillarpkgconfigplyrpolynomprettyunitsprogresspurrrquantregR.methodsS3R.ooR.utilsR6RColorBrewerRcppRcppEigenreadrreadxlrematchreshape2riorlangrstatixS4ArraysS4VectorsscalesSparseArraySparseMstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttzdbUCSC.utilsutf8vctrsveganviridisLitevroomwithrwritexlXVectorzlibbioc

Link-HD: a versatile framework to explore and integrate heterogeneous data

Rendered fromLinkHD.Rmdusingknitr::rmarkdownon Nov 17 2024.

Last update: 2019-10-16
Started: 2019-09-26

Readme and manuals

Help Manual

Help pageTopics
compromise_coordscompromise_coords compromise_coords,DistStatis-method
Compromise_matrixCompromise_matrix Compromise_matrix,DistStatis-method
Compromise-PlotCompromisePlot CompromisePlot,DistStatis-method
correlcorrel correl,DistStatis-method
Correlation-PlotCorrelationPlot CorrelationPlot,DistStatis-method
dABdAB
DataProcessingDataProcessing
Class 'DistStatis' DistStatis S4 class (linkHD:Multiple Heterogeneous Dataset Integration) Statis with Distance options implementation.DistStatis-class
Euclid_ImEuclid_Im Euclid_Im,DistStatis-method
Global-PlotGlobalPlot GlobalPlot,DistStatis-method
Inertia_compInertia_comp Inertia_comp,DistStatis-method
Inertia_RVInertia_RV Inertia_RV,DistStatis-method
LinkData: multiple heterogeneous dataset integrationLinkData
OTU2TaxaOTU2Taxa
Read_Data: a fast way to data reading.Read_Data
RQORQO RQO,DistStatis-method
Whole Ruminotypes dataset communitiesRuminotypes
sign_valuessign_values sign_values,VarSelection-method
TARA Oceans datasetsTaraoceans
TrajectoriesTrajectories Trajectories,DistStatis-method
Var_coordinatesVar_coordinates Var_coordinates,VarSelection-method
VariablesVariables Variables,VarSelection-method
Variable SelectionVarSelection
class VarSelectionVarSelection-class
VarTableVarTable VarTable,VarSelection-method