DGEobj: Differential Gene Expression (DGE) Analysis Results Data Object
Provides a flexible container to manage and annotate Differential Gene
Expression (DGE) analysis results (Smythe et. al (2015) <doi:10.1093/nar/gkv007>).
The DGEobj has data slots for row (gene), col (samples), assays (matrix n-rows
by m-samples dimensions) and metadata (not keyed to row, col, or assays).
A set of accessory functions to deposit, query and retrieve subsets of a data
workflow has been provided. Attributes are used to capture metadata such as
species and gene model, including reproducibility information such that a 3rd
party can access a DGEobj history to see how each data object was created or
modified. Since the DGEobj is customizable and extensible it is not limited
to RNA-seq analysis types of workflows – it can accommodate nearly any data
analysis workflow that starts from a matrix of assays (rows) by samples (columns).
||R (≥ 3.5.0)
||assertthat, magrittr, stringr, utils
||biomaRt, conflicted, dplyr, edgeR, GenomicRanges, glue, knitr, rmarkdown, testthat
||John Thompson [aut],
Connie Brett [aut, cre],
Isaac Neuhaus [aut],
Ryan Thompson [aut]
||Connie Brett <connie at aggregate-genius.com>
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