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).

AuthorMohammad Tanvir Ahamed [aut, trl], Anna Danielsson [aut], Szilárd Nemes [aut, trl], Helena Carén [aut, cre, cph]
Date of publicationNone
MaintainerHelena Carén <helenacarenlab@gmail.com>
LicenseGPL-2
Version1.2.0

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Files in this package

MethPed/DESCRIPTION
MethPed/NAMESPACE
MethPed/R
MethPed/R/MethPed.R MethPed/R/MethPed_checkNA.R MethPed/R/MethPed_dataset.R MethPed/R/MethPed_plot.methped.R MethPed/R/MethPed_probeMis.R MethPed/R/MethPed_summary.methped.R
MethPed/R/sysdata.rda
MethPed/build
MethPed/build/vignette.rds
MethPed/data
MethPed/data/MethPed_900probes.rda
MethPed/data/MethPed_sample.rda
MethPed/data/datalist
MethPed/inst
MethPed/inst/doc
MethPed/inst/doc/MethPed-vignette.R
MethPed/inst/doc/MethPed-vignette.Rmd
MethPed/inst/doc/MethPed-vignette.html
MethPed/man
MethPed/man/MethPed.Rd MethPed/man/MethPed_900probes.Rd MethPed/man/MethPed_sample.Rd MethPed/man/checkNA.Rd MethPed/man/plot.methped.Rd MethPed/man/probeMis.Rd MethPed/man/summary.methped.Rd
MethPed/vignettes
MethPed/vignettes/MethPed-vignette.Rmd

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