Package: modACDC 2.0.1

Katelyn Queen

modACDC: Association of Covariance for Detecting Differential Co-Expression

A series of functions to implement association of covariance for detecting differential co-expression (ACDC), a novel approach for detection of differential co-expression that simultaneously accommodates multiple phenotypes or exposures with binary, ordinal, or continuous data types. Users can use the default method which identifies modules by Partition or may supply their own modules. Also included are functions to choose an information loss criterion (ILC) for Partition using OmicS-data-based Complex trait Analysis (OSCA) and Genome-wide Complex trait Analysis (GCTA). The manuscript describing these methods is as follows: Queen K, Nguyen MN, Gilliland F, Chun S, Raby BA, Millstein J. "ACDC: a general approach for detecting phenotype or exposure associated co-expression" (2023) <doi:10.3389/fmed.2023.1118824>.

Authors:Katelyn Queen [aut, cre, cph], Joshua Millstein [aut, cph]

modACDC_2.0.1.tar.gz
modACDC_2.0.1.zip(r-4.5)modACDC_2.0.1.zip(r-4.4)modACDC_2.0.1.zip(r-4.3)
modACDC_2.0.1.tgz(r-4.5-any)modACDC_2.0.1.tgz(r-4.4-any)modACDC_2.0.1.tgz(r-4.3-any)
modACDC_2.0.1.tar.gz(r-4.5-noble)modACDC_2.0.1.tar.gz(r-4.4-noble)
modACDC_2.0.1.tgz(r-4.4-emscripten)modACDC_2.0.1.tgz(r-4.3-emscripten)
modACDC.pdf |modACDC.html
modACDC/json (API)
NEWS

# Install 'modACDC' in R:
install.packages('modACDC', repos = c('https://uscbiostats.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/uscbiostats/acdc/issues

On CRAN:

Conda:

2.70 score 1 stars 265 downloads 10 exports 59 dependencies

Last updated 12 months agofrom:4d535285fc. Checks:1 OK, 8 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 05 2025
R-4.5-winNOTEMar 05 2025
R-4.5-macNOTEMar 05 2025
R-4.5-linuxNOTEMar 05 2025
R-4.4-winNOTEMar 05 2025
R-4.4-macNOTEMar 05 2025
R-4.4-linuxNOTEMar 05 2025
R-4.3-winNOTEMar 05 2025
R-4.3-macNOTEMar 05 2025

Exports:ACDCACDChighdimACDCmodcoVarGCTA_parGCTA_parPlotGCTA_singleValueOSCA_parOSCA_parPlotOSCA_singleValue

Dependencies:bitbit64CCPclicliprcodetoolscolorspacecpp11crayondata.tabledoParalleldplyrfansifarverforcatsforeachgenericsgenieclustgenioggplot2gluegtablehmsinfotheoisobanditeratorslabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepartitionpillarpkgconfigprettyunitsprogresspurrrR6RColorBrewerRcppRcppArmadilloreadrrlangscalesstringistringrtibbletidyrtidyselecttzdbutf8vctrsviridisLitevroomwithr

Readme and manuals

Help Manual

Help pageTopics
ACDCACDC
ACDChighdimACDChighdim
ACDCmodACDCmod
coVarcoVar
GCTA_parGCTA_par
GCTA_parPlotGCTA_parPlot
GCTA_singleValueGCTA_singleValue
OSCA_parOSCA_par
OSCA_parPlotOSCA_parPlot
OSCA_singleValueOSCA_singleValue