bioconductor-methped

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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).

Home http://bioconductor.org/packages/3.6/bioc/html/MethPed.html
Versions 1.4.0, 1.6.0
License GPL-2
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-methped

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-methped

and update with:

conda update bioconductor-methped

docker

A Docker container is available at https://quay.io/repository/biocontainers/bioconductor-methped.