Package: activAnalyzer 2.1.2.9000

activAnalyzer: A 'Shiny' App to Analyze Accelerometer-Measured Daily Physical Behavior Data

A tool to analyse 'ActiGraph' accelerometer data and to implement the use of the PROactive Physical Activity in COPD (chronic obstructive pulmonary disease) instruments. Once analysis is completed, the app allows to export results to .csv files and to generate a report of the measurement. All the configured inputs relevant for interpreting the results are recorded in the report. In addition to the existing 'R' packages that are fully integrated with the app, the app uses some functions from the 'actigraph.sleepr' package developed by Petkova (2021) <https://github.com/dipetkov/actigraph.sleepr/>.

Authors:Pierre-Yves de Müllenheim [cre, aut]

activAnalyzer_2.1.2.9000.tar.gz
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activAnalyzer.pdf |activAnalyzer.html✨
activAnalyzer/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/pydemull/activanalyzer/issues

On CRAN:

accelerometeractigraphappmonitorshiny

5.35 score 5 stars 8 scripts 493 downloads 30 exports 117 dependencies

Last updated 2 months agofrom:b0abf5fd64. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 27 2024
R-4.5-winOKOct 27 2024
R-4.5-linuxOKOct 27 2024
R-4.4-winOKOct 27 2024
R-4.4-macOKOct 27 2024
R-4.3-winOKOct 27 2024
R-4.3-macOKOct 27 2024

Exports:average_resultscompute_accumulation_metricscompute_bmrcompute_intensity_distri_metricscompute_metscompute_pro_actigraph_scorecompute_pro_score_cppaccompute_pro_score_dppaccreate_fig_mvpacreate_fig_mx_by_daycreate_fig_mx_summarycreate_fig_palcreate_fig_ratio_mvpa_sedcreate_fig_res_by_daycreate_fig_sedcreate_fig_stepscreate_flextable_summaryget_guidelines_statusget_pal_statusget_ratio_mvpa_sed_commentmark_intensitymark_wear_timeplot_dataplot_data_with_intensityprepare_datasetrasch_transformread_agdread_agd_rawrecap_by_dayrun_app

Dependencies:askpassassertthatattemptbackportsbase64encbitbit64blobbroombslibcachemclicolorspacecommonmarkconfigcpp11crayondata.tableDBIdbplyrdigestdplyrevaluatefansifarverfastmapflextablefontawesomefontBitstreamVerafontLiberationfontquiverforcatsfreshfsgdtoolsgenericsggplot2gluegolemgtableherehighrhmshtmltoolshtmlwidgetshttpuvisobandjquerylibjsonliteknitrlabelinglaterlatticelifecyclelubridatemagrittrMASSMatrixmemoisemgcvmimemodelrmunsellnlmeofficeropensslpatchworkPhysicalActivitypillarpkgconfigplogrplyrpromisespurrrR6raggrappdirsRColorBrewerRcppreactablereactRrlangrmarkdownrprojrootRSQLiterstudioapisassscalesshinyshinycssloadersshinydashboardshinydashboardPlusshinyFeedbackshinyjssourcetoolsstringistringrsyssystemfontstextshapingtibbletidyrtidyselecttimechangetinytexutf8uuidvctrsviridisLitewaiterwithrxfunxml2xtableyamlzipzoo

activAnalyzer

Rendered fromactivAnalyzer.Rmdusingknitr::rmarkdownon Oct 27 2024.

Last update: 2024-09-22
Started: 2021-10-11

Readme and manuals

Help Manual

Help pageTopics
Average results over valid daysaverage_results
Compute activity accumulation metricscompute_accumulation_metrics
Compute Basal Metabolic Rate (BMR)compute_bmr
Compute intensity distribution metricscompute_intensity_distri_metrics
Compute metabolic equivalent of task (MET) valuescompute_mets
Compute MX metriccompute_mx
Compute mean step accumulation (per min) from a given number of the best continous or discontinuous minutescompute_peak_step_acc
Compute PROactive monitor-based physical activity score for C-PPAC toolcompute_pro_actigraph_score
Provide score for each question of the C-PPACcompute_pro_score_cppac
Provide score for each question of the D-PPACcompute_pro_score_dppac
Create a figure showing the mean daily MVPA timecreate_fig_mvpa
Create a radar plot for MX metrics relating to each day of the measurement of physical behaviorcreate_fig_mx_by_day
Create a radar plot for the mean or median MX metrics relating to the measurement of physical behaviorcreate_fig_mx_summary
Create a figure showing the mean daily Physical Activity Level (PAL)create_fig_pal
Create a figure showing the mean daily MVPA/SED ratiocreate_fig_ratio_mvpa_sed
Create a figure with metrics shown for each daycreate_fig_res_by_day
Create a figure showing the mean daily sedentary (SED) timecreate_fig_sed
Create a figure showing the mean daily step countcreate_fig_steps
Create a formatted table of resultscreate_flextable_summary
Do all analyses at oncedo_all_analyses
Get WHO physical activity guidelines statusget_guidelines_status
Get intensity gradient values and graphicsget_ig_results
Get relevant missing physical activity information indicated by the user of the appget_pa_period_info
Get FAO physical activity level (PAL) status (http://www.fao.org/3/y5686e/y5686e07.htm#bm07.3)get_pal_status
Get comment about the MVPA/SED ratioget_ratio_mvpa_sed_comment
Add intensity metricsmark_intensity
Mark dataset for nonwear/wear timemark_wear_time
Plot accelerometer data for each dayplot_data
Plot accelerometer data for each day with both nonwear time and physical activity intensity categoriesplot_data_with_intensity
Prepare accelerometer dataprepare_dataset
Compute Rasch transformation for PROactive scoresrasch_transform
Read activity counts from an *.agd fileread_agd
Read an *.agd file, with no post-processingread_agd_raw
Summarize results by dayrecap_by_day
Run the Shiny Applicationrun_app