Package: combat.enigma 1.1
combat.enigma: Fit and Apply ComBat, LMM, or Prescaling Harmonization for ENIGMA and Other Multisite MRI Data
Fit and apply ComBat, linear mixed-effects models (LMM), or prescaling to harmonize magnetic resonance imaging (MRI) data from different sites. Briefly, these methods remove differences between sites due to using different scanning devices, and LMM additionally tests linear hypotheses. As detailed in the manual, the original ComBat function was first modified for the harmonization of MRI data (Fortin et al. (2017) <doi:10.1016/j.neuroimage.2017.11.024>) and then modified again to create separate functions for fitting and applying the harmonization and allow missing values and constant rows for its use within the Enhancing Neuro Imaging Genetics through Meta-Analysis (ENIGMA) Consortium (Radua et al. (2020) <doi:10.1016/j.neuroimage.2017.11.024>); this package includes the latter version. LMM calls "lme" massively considering specific brain imaging details. Finally, prescaling is a good option for fMRI, where different devices can have varying units of measurement.
Authors:
combat.enigma_1.1.tar.gz
combat.enigma_1.1.tar.gz(r-4.5-noble)combat.enigma_1.1.tar.gz(r-4.4-noble)
combat.enigma_1.1.tgz(r-4.4-emscripten)combat.enigma_1.1.tgz(r-4.3-emscripten)
combat.enigma.pdf |combat.enigma.html✨
combat.enigma/json (API)
NEWS
# Install 'combat.enigma' in R: |
install.packages('combat.enigma', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- combat_example - Simulated MRI data for combat_fit/apply
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 6 days agofrom:3abbd140b3. Checks:OK: 2. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 18 2024 |
R-4.5-linux | OK | Oct 18 2024 |
Exports:combat_applycombat_fitlmm_fitprescale_applyprescale_fit
Dependencies:abindbackportsbootbroomcarcarDatacaretclasscliclockcodetoolscolorspacecowplotcpp11data.tableDerivdiagramdigestdoBydplyre1071fansifarverforeachFormulafuturefuture.applygenericsggplot2globalsgluegowergtablehardhatipredisobanditeratorsKernSmoothlabelinglatticelavalifecyclelistenvlme4lubridatemagrittrMASSMatrixMatrixModelsmgcvmicrobenchmarkminqaModelMetricsmodelrmunsellnlmenloptrnnetnumDerivparallellypbkrtestpillarpkgconfigplyrpROCprodlimprogressrproxypurrrquantregR6RColorBrewerRcppRcppEigenrecipesreshape2rlangrpartscalesshapeSparseMSQUAREMstringistringrsurvivaltibbletidyrtidyselecttimechangetimeDatetzdbutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Simulated MRI data for combat_fit/apply | combat_example |
Fit and apply ComBat harmonization | combat_apply combat_fit |
Fit LMM harmonization and obtain model coefficients | lmm_fit |
Fit and apply brain imaging prescaling | prescale_apply prescale_fit |