MM2S: Single-Sample Classifier of Medulloblastoma Subtypes for Medulloblastoma Patient Samples, Mouse Models, and Cell Lines

Description: A single-sample classifier that generates Medulloblastoma (MB) subtype predictions for single-samples of human MB patients and model systems, including cell lines and mouse-models. The MM2S algorithm uses a systems-based methodology that facilitates application of the algorithm on samples irrespective of their platform or source of origin. MM2S demonstrates > 96% accuracy for patients of well-characterized normal cerebellum, Wingless (WNT), or Sonic hedgehog (SHH) subtypes, and the less-characterized Group4 (86%) and Group3 (78.2%). MM2S also enables classification of MB cell lines and mouse models into their human counterparts.This package contains function for implementing the classifier onto human data and mouse data, as well as graphical rendering of the results as PCA plots and heatmaps.

AuthorDeena M.A. Gendoo <deena.gendoo@utoronto.ca>, Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca>
Date of publication2016-02-25 00:39:19
MaintainerDeena M.A. Gendoo <deena.gendoo@utoronto.ca>
LicenseGPL-3
Version1.0.5
http://www.sciencedirect.com/science/article/pii/S0888754315000774, http://www.pmgenomics.ca/bhklab/software/mm2s

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Files in this package

MM2S
MM2S/inst
MM2S/inst/doc
MM2S/inst/doc/MM2S.Rnw
MM2S/inst/doc/MM2S_FromRawData.pdf
MM2S/inst/doc/MM2S_FromRawData.R
MM2S/inst/doc/MM2S_Vignette_FrozenCapture.pdf
MM2S/inst/doc/MM2S.pdf
MM2S/inst/doc/MM2S_FromRawData.Rnw
MM2S/inst/doc/MM2S_FromRawData_Vignette_FrozenCapture.pdf
MM2S/inst/doc/MM2S.R
MM2S/NAMESPACE
MM2S/NEWS
MM2S/data
MM2S/data/MM2Ssetup.rda
MM2S/data/WNT_Mouse_Expr.rda
MM2S/data/Human_Cho_Expr.rda
MM2S/data/datalist
MM2S/data/GTML_Mouse_Preds.rda
MM2S/R
MM2S/R/MM2S.mouse.R MM2S/R/PredictionsDistributionBoxplot.R MM2S/R/PredictionsDistributionPie.R MM2S/R/PCARender.R MM2S/R/MM2S.human.R MM2S/R/PredictionsHeatmap.R MM2S/R/PredictionsBarplot.R
MM2S/vignettes
MM2S/vignettes/MM2S.Rnw
MM2S/vignettes/MM2S_FromRawData.Rnw
MM2S/MD5
MM2S/README
MM2S/build
MM2S/build/vignette.rds
MM2S/DESCRIPTION
MM2S/man
MM2S/man/MM2Ssetup.Rd MM2S/man/GTML_Mouse_Preds.Rd MM2S/man/MM2S.human.Rd MM2S/man/PredictionsDistributionPie.Rd MM2S/man/WNT_Mouse_Expr.Rd MM2S/man/PredictionsDistributionBoxplot.Rd MM2S/man/PredictionsHeatmap.Rd MM2S/man/MM2S.mouse.Rd MM2S/man/Human_Cho_Expr.Rd MM2S/man/PredictionsBarplot.Rd MM2S/man/PCARender.Rd

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