Package: MethPed 1.35.0

Helena Carén

MethPed: A DNA methylation classifier tool for the identification of pediatric brain tumor subtypes

Classification of pediatric tumors into biologically defined subtypes is challenging and multifaceted approaches are needed. For this aim, we developed a diagnostic classifier based on DNA methylation profiles. We offer MethPed as an easy-to-use toolbox that allows researchers and clinical diagnosticians to test single samples as well as large cohorts for subclass prediction of pediatric brain tumors. The current version of MethPed can classify the following tumor diagnoses/subgroups: Diffuse Intrinsic Pontine Glioma (DIPG), Ependymoma, Embryonal tumors with multilayered rosettes (ETMR), Glioblastoma (GBM), Medulloblastoma (MB) - Group 3 (MB_Gr3), Group 4 (MB_Gr3), Group WNT (MB_WNT), Group SHH (MB_SHH) and Pilocytic Astrocytoma (PiloAstro).

Authors:Mohammad Tanvir Ahamed [aut, trl], Anna Danielsson [aut], Szilárd Nemes [aut, trl], Helena Carén [aut, cre, cph]

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MethPed.pdf |MethPed.html✨
MethPed/json (API)

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

Peer review:

Datasets:

On BioConductor:MethPed-1.35.0(bioc 3.21)MethPed-1.34.0(bioc 3.20)

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

immunooncologydnamethylationclassificationepigenetics

4.00 score 1 scripts 190 downloads 5 mentions 3 exports 4 dependencies

Last updated 2 months agofrom:0b7abdc321. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 23 2024
R-4.5-winOKNov 23 2024
R-4.5-linuxOKNov 23 2024
R-4.4-winNOTENov 23 2024
R-4.4-macNOTENov 23 2024
R-4.3-winNOTENov 23 2024
R-4.3-macNOTENov 23 2024

Exports:checkNAMethPedprobeMis

Dependencies:BiobaseBiocGenericsgenericsrandomForest

__MethPed__A DNA Methylation Classifier Tool for the Identification of Pediatric Brain Tumor Subtypes

*Mohammad Tanvir Ahamed, Anna Danielsson, Szilárd Nemes and Helena Carén*University of Gothenburg, Sweden

Rendered fromMethPed-vignette.Rmdusingknitr::rmarkdownon Nov 23 2024.

Last update: 2018-08-30
Started: 2016-03-06