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actiread reads raw actigraphy files and returns tidy
data frames that are ready for downstream analysis.
It currently focuses on:
gt3x filescwa filesYou can install actiread from GitHub with:
# install.packages("remotes")
remotes::install_github("jhuwit/actiread")library(actibase)
library(actiread)
gt3x_file = acti_example_gt3x()
cwa_file = acti_example_cwa()
gt3x = acti_read_gt3x(gt3x_file, verbose = FALSE)
cwa = acti_read_cwa(cwa_file, verbose = FALSE)
head(gt3x)
#> # A tibble: 6 × 4
#> time X Y Z
#> <dttm> <dbl> <dbl> <dbl>
#> 1 2019-09-17 22:40:00 0 0.008 0.996
#> 2 2019-09-17 22:40:00 0.016 0 1.01
#> 3 2019-09-17 22:40:00 0.02 -0.008 1.00
#> 4 2019-09-17 22:40:00 0.016 -0.012 1.01
#> 5 2019-09-17 22:40:00 0.016 -0.008 1.01
#> 6 2019-09-17 22:40:00 0.008 -0.008 1.01
head(cwa)
#> # A tibble: 6 × 7
#> time x y z temp battery light
#> <dttm> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
#> 1 2019-02-26 10:55:06 0.328 0.984 0.203 25.6 0 283
#> 2 2019-02-26 10:55:06 0.822 -0.343 -0.368 25.6 0 283
#> 3 2019-02-26 10:55:06 0.874 -0.390 -0.390 25.6 0 283
#> 4 2019-02-26 10:55:06 0.890 -0.391 -0.391 25.6 0 283
#> 5 2019-02-26 10:55:06 0.891 -0.376 -0.391 25.6 0 283
#> 6 2019-02-26 10:55:06 0.876 -0.360 -0.376 25.6 0 283
res = acti_standardize_data(gt3x)
resampled = acti_resample(res, sample_rate = 30L)
get_transformations(resampled)
#> [1] "acti_resample:sample_rate_attribute_changed_to_30"
#> [2] "acti_resample:linear_resampled_to_30Hz"
#> [3] "acti_read_gt3x:timezone_GMT_forced"
#> [4] "acti_read_gt3x:timezone_Etc/GMT-4_applied"
#> [5] "acti_read_gt3x:attributes_set"
#> [6] "acti_fill_zeros:filled_zeros"
#> [7] "acti_read_gt3x:data_read"tzoffset_to_tz(c("+00:00", "-05:00", "+01:00"))
#> [1] "Etc/GMT0" "Etc/GMT-5" "Etc/GMT+1"actiread is a focused import layer for actigraphy
data:
.gt3x/.gt3x.gz files with
acti_read_gt3x().cwa/.cwa.gz files with
acti_read_cwa()acti_info_gt3x()acti_example_gt3x() and
acti_example_cwa()tz and
apply_tzThe readers return tidy objects with attached metadata such as the file header and sampling rate, which makes it straightforward to hand the result off to your own cleaning, summarization, or modeling code.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.