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PANACEA: Personalized Network-Based Anti-Cancer Therapy Evaluation

Identification of the most appropriate pharmacotherapy for each patient based on genomic alterations is a major challenge in personalized oncology. 'PANACEA' is a collection of personalized anti-cancer drug prioritization approaches utilizing network methods. The methods utilize personalized "driverness" scores from 'driveR' to rank drugs, mapping these onto a protein-protein interaction network. The "distance-based" method scores each drug based on these scores and distances between drugs and genes to rank given drugs. The "RWR" method propagates these scores via a random-walk with restart framework to rank the drugs. The methods are described in detail in Ulgen E, Ozisik O, Sezerman OU. 2023. PANACEA: network-based methods for pharmacotherapy prioritization in personalized oncology. Bioinformatics <doi:10.1093/bioinformatics/btad022>.

Version: 1.0.1
Depends: R (≥ 4.0)
Imports: org.Hs.eg.db, DBI, igraph, reshape2
Suggests: rmarkdown, knitr, testthat (≥ 3.0.0), covr
Published: 2023-08-19
DOI: 10.32614/CRAN.package.PANACEA
Author: Ege Ulgen ORCID iD [aut, cre, cph]
Maintainer: Ege Ulgen <egeulgen at gmail.com>
BugReports: https://github.com/egeulgen/PANACEA/issues
License: MIT + file LICENSE
URL: https://github.com/egeulgen/PANACEA, https://egeulgen.github.io/PANACEA/
NeedsCompilation: yes
Citation: PANACEA citation info
Materials: README NEWS
CRAN checks: PANACEA results

Documentation:

Reference manual: PANACEA.pdf
Vignettes: How to use PANACEA

Downloads:

Package source: PANACEA_1.0.1.tar.gz
Windows binaries: r-devel: PANACEA_1.0.1.zip, r-release: PANACEA_1.0.1.zip, r-oldrel: PANACEA_1.0.1.zip
macOS binaries: r-release (arm64): PANACEA_1.0.1.tgz, r-oldrel (arm64): PANACEA_1.0.1.tgz, r-release (x86_64): PANACEA_1.0.1.tgz, r-oldrel (x86_64): PANACEA_1.0.1.tgz
Old sources: PANACEA archive

Linking:

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

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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