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neuroim2

Data structures and I/O for volumetric brain imaging with a focus on fMRI. This is the successor to neuroim with improved S4 classes, sparse/dense 3D–4D representations, and fast resampling/filtering.

Website: https://bbuchsbaum.github.io/neuroim2/
CRAN: https://cran.r-project.org/package=neuroim2
Cheatsheet: neuroim2_cheatsheet.md

Installation

CRAN 

install.packages("neuroim2")

R-universe (daily builds) 

install.packages("neuroim2",
  repos = c("https://bbuchsbaum.r-universe.dev", "https://cloud.r-project.org"))

Development version (GitHub) 

# install.packages("remotes")
remotes::install_github("bbuchsbaum/neuroim2")

Usage

Read a NIFTI image and perform simple operations:

## Loading required package: Matrix

## 
## Attaching package: 'neuroim2'

## The following object is masked from 'package:base':
## 
##     scale
fname <- system.file("extdata", "global_mask_v4.nii", package="neuroim2")
vol <- read_vol(fname)

v1 <- vol[1,1,1]
vol2 <- vol + vol
all(vol == (vol2 - vol))
## [1] TRUE

Create a 4D image from volumes:

vec <- vec_from_vols(list(vol, vol, vol2))
series1 <- vec[1,1,1,]
length(series1)
## [1] 3

Vignettes

See examples of use of neuroim2 in the vignettes.