Package: tacmagic 0.3.0

Eric Brown

tacmagic: Positron Emission Tomography Time-Activity Curve Analysis

To facilitate the analysis of positron emission tomography (PET) time activity curve (TAC) data, and to encourage open science and replicability, this package supports data loading and analysis of multiple TAC file formats. Functions are available to analyze loaded TAC data for individual participants or in batches. Major functionality includes weighted TAC merging by region of interest (ROI), calculating models including standardized uptake value ratio (SUVR) and distribution volume ratio (DVR, Logan et al. 1996 <doi:10.1097/00004647-199609000-00008>), basic plotting functions and calculation of cut-off values (Aizenstein et al. 2008 <doi:10.1001/archneur.65.11.1509>). Please see the walkthrough vignette for a detailed overview of 'tacmagic' functions.

Authors:Eric Brown [aut, cre], Ariel Graff-Guerrero [dgs], Jon Clayden [rev], Brandon Hurr [rev]

tacmagic_0.3.0.tar.gz
tacmagic_0.3.0.zip(r-4.7)tacmagic_0.3.0.zip(r-4.6)tacmagic_0.3.0.zip(r-4.5)
tacmagic_0.3.0.tgz(r-4.6-any)tacmagic_0.3.0.tgz(r-4.5-any)
tacmagic_0.3.0.tar.gz(r-4.7-any)tacmagic_0.3.0.tar.gz(r-4.6-any)
tacmagic_0.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
tacmagic/json (API)

# Install 'tacmagic' in R:

install.packages('tacmagic', repos = c('https://packages.ropensci.org', 'https://cloud.r-project.org'))

Reviews:rOpenSci Software Review #280

Bug tracker:https://github.com/ropensci/tacmagic/issues

Pkgdown/docs site:https://docs.ropensci.org

Datasets:

fake_DVR - Fake DVR data for vignette and package testing

On CRAN:

mri neuroimaging neuroscience neuroscience-methods pet pet-mr positron positron-emission-tomography statistics

4.89 score 6 stars 26 scripts 276 downloads 23 exports 5 dependencies

Last updated from:d6bfeb4a3b (on master). Checks:10 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	131
pkgdown docs	OK	151
source / vignettes	OK	156
linux-release-x86_64	OK	122
macos-release-arm64	OK	101
macos-oldrel-arm64	OK	82
windows-devel	OK	93
windows-release	OK	92
windows-oldrel	OK	94
wasm-release	OK	120

Exports:as.tac batch_load batch_tm batch_voistat change_units cutoff_aiz dvr DVR_all_ref_Logan DVR_ref_Logan load_tac load_voistat load_vol pos_anyroi roi_ham_full roi_ham_pib roi_ham_stand save_tac split_pvc suv suvr suvr_auc tac_roi tac_suv

Dependencies:pracma R.matlab R.methodsS3 R.oo R.utils

Analysis with tacmagic

Rendered fromwalkthrough.Rmdusingknitr::rmarkdown

Last update: 2019-06-06
Started: 2019-01-25

Help page	Topics
Creates a tac object from a data.frame	as.tac
Load (+/- merge) ROIs for batch of participants	batch_load
Calculate one or more models for a batch of participants	batch_tm
Obtain values from voistat files (using load_voistat() for a batch.	batch_voistat
Convert radioactivity units	change_units
Cutoff value calculation using method described in Aizenstein et al. 2008	cutoff_aiz
Distribution volume ratio (DVR) for one or more ROIs	dvr
Non-invasive reference Logan method for all ROIs in tac data	DVR_all_ref_Logan
Non-invasive reference Logan method	DVR_ref_Logan
Fake DVR data for vignette and package testing	fake_DVR
Loads TAC from file for use by other functions (default is PMOD .tac format)	load_tac
Reads PMOD .voistat files and optionally merges volume-weighted ROIs	load_voistat
Loads ROI volumes from file for use by other functions	load_vol
Non-invasive reference Logan plot	plot.ref_Logan
Plots time activity curves from 1 or 2 participants or groups.	plot.tac
Dichotomize participants based on ROI cutoff values	pos_anyroi
Return a list of larger ROIs made up of the ROIs in the Hammer's atlas.	roi_ham_full
Return a list of merged ROIs made up of atomic ROIs in the Hammer's atlas.	roi_ham_pib
Return a list of merged ROIs made up of the atomic ROIs in the Hammer's atlas.	roi_ham_stand
Save a tac object as a .tac file	save_tac
Subset PMOD tacs with or without PVC	split_pvc
Calculate average SUV over time window, or maximum SUV	suv
Calculate weighted SUVRs for specified regions of interest	suvr
Calculate SUVRs for regions of interest with AUC from mid-frame times	suvr_auc
Calculate weighted time-activity curves for specified regions of interest	tac_roi
Calculate SUV from TAC	tac_suv
tacmagic: PET Analysis in R	tacmagic-package tacmagic

Package: tacmagic 0.3.0

tacmagic: Positron Emission Tomography Time-Activity Curve Analysis

Citation

Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)