The functions in this package can be used to compute diet quality scores from National Cancer Institute (NCI)-developed dietary assessment screeners. Specifically, this package facilitates the computation of dietary variables from two screeners:
- Multifactor Screener in Observing Protein and Energy Nutrition (OPEN) Study (use function:
mfs_scores) - Percentage Energy from Fat Screener (use function:
pef_scores)
Each function takes a data.frame as an input and returns the same data.frame with the diet scores appended and some summary statistics for the new variables. See the function documentations (?pef_scores or ?mfs_scores) for the names and descriptions of the variables each function outputs.
Multifactor Screener, Documentation, Codebook/Data Dictionary
Install the development version hosted on this repository (requires the devtools package) by specifying the following syntax:
# install.packages( "devtools" )
devtools::install_github( "cmainov/NCIdietscores" )
pef_scoresandmfs_scoresrequire specifically-formatted datasets as inputs. Data examples can be accessed using:
library( NCIdietscores )
NCIdietscores::diet.data # toy data example for `mfs_scores`
NCIdietscores::test.data # toy data example for `pef_scores`
- Alternatively, users may also specify their own column names though these functions already assume a default set of column names. See function documentation (
?pef_scoresor?mfs_scores) for a guide on specifying column names and the function calls.
Using the toy package data, we can run mfs_scores on diet.data
mfs_scores( NCIdietscores::diet.data )
# pred.fiber pred.pcf pred.fv7.ce
# Min. :2.471 Min. :15.99 Min. : 1.792
# 1st Qu.:3.245 1st Qu.:45.62 1st Qu.: 4.478
# Median :4.132 Median :52.53 Median : 5.365
# Mean :4.110 Mean :54.23 Mean : 5.992
# 3rd Qu.:4.872 3rd Qu.:61.83 3rd Qu.: 7.294
# Max. :6.863 Max. :93.23 Max. :11.602
# pred.fv6.ce raw.pred.fv7.ce raw.pred.fv6.ce
# Min. : 1.245 Min. : 0.9808 Min. : 0.4712
# 1st Qu.: 4.280 1st Qu.: 4.0387 1st Qu.: 3.5043
# Median : 4.611 Median : 4.9938 Median : 4.4268
# Mean : 5.386 Mean : 5.8911 Mean : 5.2252
# 3rd Qu.: 6.806 3rd Qu.: 7.7228 3rd Qu.: 7.3139
# Max. :10.329 Max. :12.6409 Max. :11.4094
# pred.fv7.ps pred.fv6.ps
# Min. :1.948 Min. :1.511
# 1st Qu.:2.806 1st Qu.:2.684
# Median :3.165 Median :2.864
# Mean :3.210 Mean :2.987
# 3rd Qu.:3.607 3rd Qu.:3.520
# Max. :4.532 Max. :3.980
# HQ1 HQ2 HQ3 HQ4 HQ5 HQ6 HQ7 HQ8 HQ9 HQ10 HQ11 HQ12 HQ13
# 1 5 4 5 6 8 4 9 2 6 7 7 5 8
# 2 6 9 1 7 1 7 8 1 1 5 9 9 1
# 3 3 6 3 3 3 6 3 5 9 8 1 5 5
# 4 9 3 6 7 5 1 9 6 6 2 8 8 6
# 5 3 9 6 6 5 2 2 4 9 3 8 1 3
# 6 6 4 5 4 6 7 9 3 5 9 6 3 9
# HQ14 HQ15 HQ16 HQ2A SEX AGE pred.fiber pred.pcf
# 1 7 2 4 4 1 27 5.163022 35.76562
# 2 5 7 9 1 2 23 6.097605 66.98295
# 3 3 5 4 3 2 90 3.102291 45.61516
# 4 4 7 6 2 2 60 5.054856 49.02046
# 5 6 2 9 1 2 37 3.025184 70.54729
# 6 2 9 8 5 1 98 5.163261 63.78510
# pred.fv7.ce pred.fv6.ce raw.pred.fv7.ce raw.pred.fv6.ce
# 1 10.150420 8.785047 10.690459 9.248209
# 2 9.028103 8.665692 10.630752 10.230210
# 3 4.816921 3.771122 4.652084 3.319304
# 4 7.029482 6.943260 7.722786 7.696331
# 5 4.497077 4.388527 4.226628 4.129235
# 6 9.467351 7.530622 9.785022 7.535112
# pred.fv7.ps pred.fv6.ps
# 1 4.189652 3.777207
# 2 4.001536 3.896283
# 3 3.018089 2.612201
# 4 3.532296 3.520022
# 5 2.865299 2.821729
# 6 4.169954 3.593200
NCIdietscores is licensed under the GNU General Public License Version 3. You can report any bugs, ask questions, or suggest new features in the issue queue. Pull requests and contributions will be reviewed and incorporated into the package at the discretion of the package maintainer.
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The Multifactor screener in the Observing Protein & Energy Nutrition (OPEN) Study. Epidemiology and Genomics Research Program. National Cancer Institute. https://epi.grants.cancer.gov/diet/screeners/files.Updated November 20, 2019.
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Percentage Energy From Fat Screener. Epidemiology and Genomics Research Program. National Cancer Institute. https://epi.grants.cancer.gov/diet/screeners/files.
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Thompson FE, Midthune D, Subar AF, Kipnis V, Kahle LL, Schatzkin A. Development and evaluation of a short instrument to estimate usual dietary intake of percentage energy from fat. J Am Diet Assoc 2007 May;107(5):760-7.
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Thompson FE, Midthune D, Williams GC, Yaroch AL, Hurley TG, Resnicow K, Hebert JR, Toobert DJ, Greene GW, Peterson K, Nebeling L. Evaluation of a short dietary assessment instrument for percentage energy from fat in an intervention study. J Nutr 2008 Jan;138(1):193S-199S.