Revise on the algorithm - taking size factors into account when estimating ZINB/NB parameters.
Our package is now on Bioconductor! See the link https://bioconductor.org/packages/devel/bioc/html/QRscore.html
Added a NEWS.md file to document package changes, improving transparency
and user engagement.
Enhanced quality assurance by incorporating unit tests using the testthat
package.
README.md to include installation instructions directly from
Bioconductor, ensuring consistency with Bioconductor standards.Introduced a package-level man page to enhance documentation.
Added a runnable example for the exported function rzinbinom.
Updated function naming to adhere to Bioconductor guidelines, removing periods
from function names and prefixing non-exported functions with a dot
(e.g., .dzinbinom).
Replaced sapply() with vapply() for more robust and predictable outputs.
Changed sequence generation from 1:... to seq_len() or seq_along() and
replaced assignment = with <-.
Minimized the use of paste in condition signals and discouraged the default
use of suppressWarnings().
Addressed R CMD check warnings and notes, including mismatches in documentation and code. Updated R version dependency from 3.5.0 to 4.4.0.
Handled top-level file issues and improved several other aspects based on BiocCheck recommendations.
Renamed the vignette to QRScore.Rmd for easier access and updated with
BiocStyle for improved formatting.
Consolidated settings in knitr::opts_chunk$set and adhered to R conventions
for assignments.