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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "RNAdecay" in publications use:'
type: software
license: GPL-2.0-only
title: 'RNAdecay: Maximum Likelihood Decay Modeling of RNA Degradation Data'
version: 1.25.0
abstract: 'RNA degradation is monitored through measurement of RNA abundance after
  inhibiting RNA synthesis. This package has functions and example scripts to facilitate
  (1) data normalization, (2) data modeling using constant decay rate or time-dependent
  decay rate models, (3) the evaluation of treatment or genotype effects, and (4)
  plotting of the data and models. Data Normalization: functions and scripts make
  easy the normalization to the initial (T0) RNA abundance, as well as a method to
  correct for artificial inflation of Reads per Million (RPM) abundance in global
  assessments as the total size of the RNA pool decreases. Modeling: Normalized data
  is then modeled using maximum likelihood to fit parameters. For making treatment
  or genotype comparisons (up to four), the modeling step models all possible treatment
  effects on each gene by repeating the modeling with constraints on the model parameters
  (i.e., the decay rate of treatments A and B are modeled once with them being equal
  and again allowing them to both vary independently). Model Selection: The AICc value
  is calculated for each model, and the model with the lowest AICc is chosen. Modeling
  results of selected models are then compiled into a single data frame. Graphical
  Plotting: functions are provided to easily visualize decay data model, or half-life
  distributions using ggplot2 package functions.'
authors:
- family-names: Sorenson
  given-names: Reed
  email: reedssorenson@gmail.com
- family-names: Johnson
  given-names: Katrina
  email: kjohnson@math.utah.edu
- family-names: Adler
  given-names: Frederick
  email: adler@math.utah.edu
- family-names: Sieburth
  given-names: Leslie
  email: sieburth@biology.utah.edu
repository: https://bioc.r-universe.dev
date-released: '2020-04-14'
contact:
- family-names: Sorenson
  given-names: Reed
  email: reedssorenson@gmail.com