DeSciDe: Tool for Unbiased Literature Searching and Gene List Curation

Designed for genomic and proteomic data analysis, enabling unbiased PubMed searching, protein interaction network visualization, and comprehensive data summarization. This package aims to help users identify novel targets within their data sets based on protein network interactions and publication precedence of target's association with research context based on literature precedence. Methods in this package are described in detail in: Douglas (Year) <to-be-added DOI or link to the preprint>. Key functionalities of this package also leverage methodologies from previous works, such as: - Szklarczyk et al. (2023) <doi:10.1093/nar/gkac1000> - Winter (2017) <doi:10.32614/RJ-2017-066>.

Version:	1.0.0
Depends:	R (≥ 4.0.0)
Imports:	rentrez, ComplexHeatmap, circlize, STRINGdb, data.table, igraph, ggplot2, openxlsx, dplyr, tidyr, magrittr, tibble, ggrepel
Suggests:	testthat (≥ 3.0.0), knitr, rmarkdown, withr
Published:	2025-04-29
DOI:	10.32614/CRAN.package.DeSciDe
Author:	Cameron Douglas [aut, cre]
Maintainer:	Cameron Douglas <camerondouglas at ufl.edu>
BugReports:	https://github.com/camdouglas/DeSciDe/issues
License:	MIT + file LICENSE
URL:	https://github.com/camdouglas/DeSciDe
NeedsCompilation:	no
Materials:	README
CRAN checks:	DeSciDe results

Documentation:

Reference manual:	DeSciDe.pdf
Vignettes:	DeSciDe Vignette (source, R code)

Downloads:

Package source:	DeSciDe_1.0.0.tar.gz
Windows binaries:	r-devel: DeSciDe_1.0.0.zip, r-release: DeSciDe_1.0.0.zip, r-oldrel: DeSciDe_1.0.0.zip
macOS binaries:	r-release (arm64): DeSciDe_1.0.0.tgz, r-oldrel (arm64): DeSciDe_1.0.0.tgz, r-release (x86_64): DeSciDe_1.0.0.tgz, r-oldrel (x86_64): DeSciDe_1.0.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=DeSciDe to link to this page.