Package: BayesDLMfMRI 0.0.3

Carlos Pérez

BayesDLMfMRI: Statistical Analysis for Task-Based Fmri Data

The 'BayesDLMfMRI' package performs statistical analysis for task-based functional magnetic resonance imaging (fMRI) data at both individual and group levels. The analysis to detect brain activation at the individual level is based on modeling the fMRI signal using Matrix-Variate Dynamic Linear Models (MDLM). The analysis for the group stage is based on posterior distributions of the state parameter obtained from the modeling at the individual level. In this way, this package offers several R functions with different algorithms to perform inference on the state parameter to assess brain activation for both individual and group stages. Those functions allow for parallel computation when the analysis is performed for the entire brain as well as analysis at specific voxels when it is required. References: Cardona-Jiménez (2021) <doi:10.1016/j.csda.2021.107297>; Cardona-Jiménez (2021) <arxiv:2111.01318>.

Authors:Johnatan Cardona-Jiménez [aut], Carlos Pérez [cre, aut], Isabel Ramírez [aut]

BayesDLMfMRI_0.0.3.tar.gz
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BayesDLMfMRI.pdf |BayesDLMfMRI.html
BayesDLMfMRI/json (API)

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

Peer review:

Bug tracker:https://github.com/johnatanlab/bayesdlmfmri/issues

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3
  • openmp– GCC OpenMP (GOMP) support library
Datasets:
  • Covariates - Covariates related to the observed BOLD response
  • ffd - MNI image used to plot posterior probability maps in the vignette examples.
  • mask - A 3D array that works as a brain of reference (MNI atlas).

On CRAN:

4.00 score 4 scripts 286 downloads 21 exports 16 dependencies

Last updated 10 months agofrom:515e156d0c. Checks:OK: 4 NOTE: 5. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 16 2024
R-4.5-win-x86_64NOTENov 16 2024
R-4.5-linux-x86_64NOTENov 16 2024
R-4.4-win-x86_64NOTENov 16 2024
R-4.4-mac-x86_64NOTENov 16 2024
R-4.4-mac-aarch64NOTENov 16 2024
R-4.3-win-x86_64OKNov 16 2024
R-4.3-mac-x86_64OKNov 16 2024
R-4.3-mac-aarch64OKNov 16 2024

Exports:ffdEvidenceFETSffdEvidenceFFBSffdEvidenceFSTSffdGroupEvidenceFETSffdGroupEvidenceFFBSffdGroupEvidenceFSTSget_example_fMRI_dataget_example_fMRI_data_groupGroupSingleVoxelFETSGroupSingleVoxelFFBSGroupSingleVoxelFSTSplot.fMRI_single_evidenceprint.fMRI_group_evidenceprint.fMRI_group_single_voxelprint.fMRI_single_evidenceprint.fMRI_single_voxelSingleVoxelFETSSingleVoxelFFBSSingleVoxelFSTSsummary.fMRI_group_evidencesummary.fMRI_single_evidence

Dependencies:abindbitopsmathjaxrmatrixStatsneurobaseoro.niftipbapplyR.methodsS3R.ooR.utilsrbibutilsRcppRcppArmadilloRcppDistRdpackRNifti

Individual_analysis

Rendered fromIndividual_analysis.Rmdusingknitr::rmarkdown_notangleon Nov 16 2024.

Last update: 2023-02-07
Started: 2023-01-01

Readme and manuals

Help Manual

Help pageTopics
Bayesian Matrix-Variate Dynamic Linear Models for Task-based fMRI Modeling in RBayesDLMfMRI-package BayesDLMfMRI
Covariates related to the observed BOLD responseCovariates
MNI image used to plot posterior probability maps in the vignette examples.ffd
ffdEvidenceFETSffdEvidenceFETS
ffdEvidenceFFBSffdEvidenceFFBS
ffdEvidenceFSTSffdEvidenceFSTS
ffdGroupEvidenceFETSffdGroupEvidenceFETS
ffdGroupEvidenceFFBSffdGroupEvidenceFFBS
ffdGroupEvidenceFSTSffdGroupEvidenceFSTS
get_example_fMRI_dataget_example_fMRI_data
get_example_fMRI_data_groupget_example_fMRI_data_group
GroupSingleVoxelFETSGroupSingleVoxelFETS
GroupSingleVoxelFFBSGroupSingleVoxelFFBS
GroupSingleVoxelFSTSGroupSingleVoxelFSTS
A 3D array that works as a brain of reference (MNI atlas).mask
plot.fMRI_single_evidenceplot.fMRI_single_evidence
print.fMRI_group_evidenceprint.fMRI_group_evidence
print.fMRI_group_single_voxelprint.fMRI_group_single_voxel
print.fMRI_single_evidenceprint.fMRI_single_evidence
print.fMRI_single_voxelprint.fMRI_single_voxel
SingleVoxelFETSSingleVoxelFETS
SingleVoxelFFBSSingleVoxelFFBS
SingleVoxelFSTSSingleVoxelFSTS
summary.fMRI_group_evidencesummary.fMRI_group_evidence
summary.fMRI_single_evidencesummary.fMRI_single_evidence