mdp: Molecular Degree of Perturbation calculates scores for transcriptome data samples based on their perturbation from controls

The Molecular Degree of Perturbation webtool quantifies the heterogeneity of samples. It takes a data.frame of omic data that contains at least two classes (control and test) and assigns a score to all samples based on how perturbed they are compared to the controls. It is based on the Molecular Distance to Health (Pankla et al. 2009), and expands on this algorithm by adding the options to calculate the z-score using the modified z-score (using median absolute deviation), change the z-score zeroing threshold, and look at genes that are most perturbed in the test versus control classes.

Package details

AuthorMelissa Lever [aut], Pedro Russo [aut], Helder Nakaya [aut, cre]
Bioconductor views BiomedicalInformatics Microarray QualityControl SystemsBiology Transcriptomics
MaintainerHelder Nakaya <[email protected]>
LicenseGPL-3
Version1.6.0
URL https://mdp.sysbio.tools/
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("mdp")

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mdp documentation built on Oct. 31, 2019, 3:19 a.m.