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PALMO
View on CRAN: Click
here
Download and install PALMO package within the R console
Install from CRAN:
install.packages("PALMO")
Install from Github:
library("remotes")
install_github("cran/PALMO")
Install by package version:
library("remotes")
install_version("PALMO", "0.1.2")
Attach the package and use:
library("PALMO")
Maintained by
Suhas Vasaikar
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
First Published: 2022-05-13
Latest Update: 2023-06-11
Description:
It is a platform for analyzing longitudinal data from bulk as well as single cell datasets. It allows to identify variations in molecular features within and across donors over longitudinal time points. The analysis can be done on bulk expression dataset without known cell type information or single cell with cell type/user-defined groups. It allows to infer stable and variable features in given donor and each cell type (or user defined group). The outlier analysis can be performed to identify technical/biological perturbed samples in donor/participant. Further, differential analysis can be performed to decipher time-wise changes in gene expression in a cell type.
How to cite:
Suhas Vasaikar (2022). PALMO: Identify Intra and Inter-Donor Variations in Bulk or Single Cell
Longitudinal Dataset. R package version 0.1.2, https://cran.r-project.org/web/packages/PALMO. Accessed 02 May. 2025.
Previous versions and publish date:
Other packages that cited PALMO R package
View PALMO citation profile
Other R packages that PALMO depends,
imports, suggests or enhances
Functions, R codes and Examples using
the PALMO R package
Some associated functions: StableFeatures . VarFeatures . annotateMetadata . avgExpCalc . checkReplicates . createPALMOfromsinglecellmatrix . createPALMOobject . cvCalcBulk . cvCalcBulkProfile . cvCalcSC . cvCalcSCProfile . cvSCsampleprofile . dimUMAPPlot . gene_featureplot . genecircosPlot . lmeVariance . longitudinalmfuzz . mergePALMOdata . multimodalView . naFilter . outlierDetect . outlierDetectP . p_value_for_event . palmo-class . sample_correlation . sclongitudinalDEG . variancefeaturePlot .
Some associated R codes: StableFeatures.R . VarFeatures.R . annotateMetadata.R . avgExpCalc.R . checkReplicates.R . createPALMOfromsinglecellmatrix.R . createPALMOobject.R . cvCalcBulk.R . cvCalcBulkProfile.R . cvCalcSC.R . cvCalcSCProfile.R . cvSCsampleprofile.R . dimUMAPPlot.R . gene_featureplot.R . genecircosPlot.R . global.R . lmeVariance.R . longitudinalmfuzz.R . mergePALMOdata.R . multimodalView.R . naFilter.R . outlierDetect.R . outlierDetectP.R . palmo.R . sample_correlation.R . sclongitudinalDEG.R . variancefeaturePlot.R . Full PALMO package functions and examples
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