DESCRIPTION

Package: Tweedieverse
Title: Differential analysis of omics data based on the Tweedie distribution
Version: 0.0.1
Date: 2021-03-03
Authors@R: c(
  person("Himel", "Mallick", email = "himel.mallick@merck.com", role = c("aut", "cre")), 
  person("Ali", "Rahnavard", email = "gholamali.rahnavard@gmail.com", role = c("aut"))
  )
Description: A toolkit for differential analysis of omics data. Implements a range of statistical methodology based on the Tweedie distribution. Unlike traditional single-omics tools, Tweedieverse is technology-agnostic and can be applied to both count and continuous measurements arising from diverse high-throughput technologies (e.g. transcript abundances from bulk and single-cell RNA-Seq studies in the form of UMI counts or non-UMI counts, microbiome taxonomic and functional profiles in the form of counts or relative abundances, and compound abundance levels or peak intensities from metabolomics and other mass spectrometry-based experiments, among others). The software includes multiple analysis methods (e.g. self-adaptive, zero-inflated, and non-zero-inflated statistical models) as well as multiple customization options such as the inclusion of random effects and multiple covariates along with several data exploration capabilities and visualization modules in a unified estimation umbrella.
Depends: R (>= 3.6)
Imports: cplm, statmod, glmmTMB, pbapply, logging, parallel, dplyr, tweedie, ggplot2, grid, pheatmap, bbmle, parameters, cowplot
Suggests: data.table, knitr
License: MIT + file LICENSE
LazyData: TRUE
RoxygenNote: 7.3.2
VignetteBuilder: knitr