Package: synergyfinder
Type: Package
Title: Calculate and Visualize Synergy Scores for Drug Combinations
Version: 3.18.0
Date: 2024-01-22
Authors@R: 
  c(person(given = "Shuyu",
           family = "Zheng",
           role = c("aut", "cre"),
           email = "shuyu.zheng@helsinki.fi"
           ),
    person(given = "Jing",
           family = "Tang",
           role = c("aut"),
           email = "jing.tang@helsinki.fi"
           )
    )
Depends: R (>= 4.0.0)
Imports: drc (>= 3.0-1), reshape2 (>= 1.4.4), tidyverse (>= 1.3.0),
        dplyr (>= 1.0.3), tidyr (>= 1.1.2), purrr (>= 0.3.4), furrr (>=
        0.2.2), ggplot2 (>= 3.3.3), ggforce (>= 0.3.2), grid (>=
        4.0.2), vegan (>= 2.5-7), gstat (>= 2.0-6), sp (>= 1.4-5),
        methods (>= 4.0.2), SpatialExtremes (>= 2.0-9), ggrepel (>=
        0.9.1), kriging (>= 1.1), plotly (>= 4.9.3), stringr (>=
        1.4.0), future (>= 1.21.0), mice (>= 3.13.0), lattice (>=
        0.20-41), nleqslv (>= 3.3.2), stats (>= 4.0.2), graphics (>=
        4.0.2), grDevices (>= 4.0.2), magrittr (>= 2.0.1), pbapply (>=
        1.4-3), metR (>= 0.9.1)
Description: Efficient implementations for analyzing pre-clinical
        multiple drug combination datasets. It provides efficient
        implementations for 1.the popular synergy scoring models,
        including HSA, Loewe, Bliss, and ZIP to quantify the degree of
        drug combination synergy; 2. higher order drug combination data
        analysis and synergy landscape visualization for unlimited
        number of drugs in a combination; 3. statistical analysis of
        drug combination synergy and sensitivity with confidence
        intervals and p-values; 4. synergy barometer for harmonizing
        multiple synergy scoring methods to provide a consensus metric
        of synergy; 5. evaluation of synergy and sensitivity
        simultaneously to provide an unbiased interpretation of the
        clinical potential of the drug combinations. Based on this
        package, we also provide a web application
        (http://www.synergyfinder.org) for users who prefer graphical
        user interface.
License: Mozilla Public License 2.0
Encoding: UTF-8
URL: http://www.synergyfinder.org
RoxygenNote: 7.2.3
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
biocViews: Software, StatisticalMethod
Config/pak/sysreqs: libabsl-dev cmake libfontconfig1-dev
        libfreetype6-dev libfribidi-dev libgdal-dev gdal-bin
        libgeos-dev make libharfbuzz-dev libicu-dev libjpeg-dev
        libpng-dev libtiff-dev libwebp-dev libxml2-dev libssl-dev
        libproj-dev libsqlite3-dev libudunits2-dev libx11-dev
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:34:24 UTC
RemoteUrl: https://github.com/bioc/synergyfinder
RemoteRef: RELEASE_3_22
RemoteSha: 6dcbcb8d6e59f519cb615b98aad67fcde096da02
NeedsCompilation: no
Packaged: 2025-11-11 17:52:13 UTC; root
Author: Shuyu Zheng [aut, cre],
  Jing Tang [aut]
Maintainer: Shuyu Zheng <shuyu.zheng@helsinki.fi>
Built: R 4.5.2; ; 2025-11-11 17:55:45 UTC; windows
