GGIR: An R package for multi-day high resolution accelerometer data analysis

[vincentvanhees]

Title: GGIR: An R package for multi-day high resolution accelerometer data analysis

Abstract: R package GGIR converts multi-day high resolution raw data from wearable movement sensors into insightful reports for researchers investigating human daily physical activity and sleep. The package includes a range of literature supported methods to process, clean and analyse the data and provide day-by-day as well as weekly estimates of physical activity and sleep parameters. In addition to the separate functions to do the different steps, the package also comes with a shell function that enables the user to process a set of input files and produce csv summary reports with a single function call, ideal for the users less proficient in R.

Editor: Me (Vincent)

Relation with NLeSC: Substantial parts of code were developed as part of projects we did with the University of Exeter and University College London.

Sprint objective: I recently drafted this paper together with three domain scientists. The text itself is already fairly mature, but I could use some help with:

1. Create (short) demonstration video of how the software works. For example, intro with demo on how data is collected, followed by screen capture summary of how to work with the software. Such a video could be a nice special feature of the paper and an extension to the existing documentation materials.
2. Brainstorm about how to best profile the software and present the profiling results.
3. I will bring an example movement sensor, such that one or two team members can record and analyse their own movement and sleep during the sprint week.
4. General improvement to text, but not a major concern.
5. Get paper ready for submission to SoftwareX, and circulate for final round of feedback.

Number of engineers needed: My estimate is that this work can be done with a fairly small team of engineers (1 or 2 in addition to myself)

[jspaaks]

In my opinion, (1) should definitely go beyond a simple screencast, I'm thinking more along the lines of what we did for eWaterCycle. Maybe ask Lode or Frank about the budget that is available for this type of thing.

[romulogoncalves]

For the 4 days of the sprint the people to who this issue is assigned should report hours on: eStep Research

Only report the days you were present at the Sprint. If you switched teams, report that days in the project specified in the issue of that team.

For extra work you need to request time to the tech leads by sending an email to techleads@esciencecenter.nl

[romulogoncalves]

@vincentvanhees once the paper is submitted, please let us through a comment on this issue and close the issue.

[vincentvanhees]

@florian-huber

• Can you close this issue when the paper is submitted next week? (I will be on annual leave)
  • Could you also please send the video urls to Tom Bakker, Lode Kulik, and Techleads as they may want to include them in the self-assessment report.

Thanks for your help!

[florian-huber]

Brief update... the two videos we made during the sprint are now on the eScience Center Youtube channel: https://www.youtube.com/watch?v=RuFBCAqFJ2M https://www.youtube.com/watch?v=S8YPTrYNWdU&t=187s

The submission of the manuscript is nearly done. Jairo still needs a cover letter though.

[jspaaks]

Cool stuff! Would somebody please add the videos to Zotero (then wait for zotero to sync with the RSD admin overnight and) then include these two videos as mentions for GGIR here https://www.research-software.nl/admin/software/wadpac-ggir

[romulogoncalves]

@florian-huber Once submitted, could you close the issue?

[florian-huber]

@romulogoncalves The GGIR manucript has now been submitted to the Journal for the Measurement of Physical Behaviour (JMPB).