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).
|Author||Mohammad Tanvir Ahamed [aut, trl], Anna Danielsson [aut], Szilárd Nemes [aut, trl], Helena Carén [aut, cre, cph]|
|Bioconductor views||Classification DNAMethylation Epigenetics|
|Date of publication||None|
|Maintainer||Helena Carén <firstname.lastname@example.org>|
checkNA: Check missing valus in dataset
MethPed: MethPed: a DNA methylation classifier tool for the...
MethPed_900probes: List of 900 probes in the predictor data
MethPed_sample: Sample dataset to MethPed package.
plot.methped: Plot conditional probability of samples that belongs to...
probeMis: Missing probe names from training data compared with input...
summary.methped: Summary of conditional probability or binary classification...
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.