Dose Response for Omics

Several functions are provided for dose-response (or concentration-response) characterization from omics data. 'DRomics' is especially dedicated to omics data obtained using a typical dose-response design, favoring a great number of tested doses (or concentrations, at least 6, and the more the better) rather than a great number of replicates (no need of three replicates). 'DRomics' provides functions 1) to check and normalize data, 2) to select monotonic or biphasic significantly responding items (e.g. probes, metabolites), 3) to choose the best-fit model among a predefined family of monotonic and biphasic models to describe each selected item 4) to derive a benchmark dose or concentration and a typology of response from each fitted curve. In the available version data are supposed to be single-channel microarray data transformed in log2, or another type of data that can be directly fitted by least-square regression without any normalization step. In the future this tool will also be able to process RNA-seq data. For further details see Larras et al (2018) .


News

=== DRomics : Dose response for omics ===

Version 1.0-1

NEW FEATURES

  • Add of column yextrem in the results of drcfit (y value at the extremum for biphasic curves)

Version 1.0-0

  • Initial release.

Reference manual

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install.packages("DRomics")

1.0-2 by Aurelie Siberchicot, 6 months ago


Browse source code at https://github.com/cran/DRomics


Authors: Marie-Laure Delignette-Muller [aut] , Elise Billoir [aut] , Floriane Larras [ctb] , Aurelie Siberchicot [aut, cre]


Documentation:   PDF Manual  


GPL (>= 2) license


Imports stats, graphics, ggplot2

Depends on limma, utils, grDevices

Suggests parallel, shiny, shinyBS, shinyjs, testthat


See at CRAN