From 55b00f504be55708ee4144c1201c6cba9bd2b5ce Mon Sep 17 00:00:00 2001 From: GitHub Actions Date: Thu, 30 Sep 2021 10:00:11 +0000 Subject: [PATCH] Re-build README.Rmd --- README.md | 190 +++++++++++++++++++++++++++--------------------------- 1 file changed, 95 insertions(+), 95 deletions(-) diff --git a/README.md b/README.md index c98ae264..cd6d85e1 100644 --- a/README.md +++ b/README.md @@ -52,26 +52,26 @@ mod1 <- lm(Sepal.Length ~ Sepal.Width + Species, data = iris) library(broom.helpers) ex1 <- mod1 %>% tidy_plus_plus() ex1 -#> # A tibble: 4 x 17 +#> # A tibble: 4 × 17 #> term variable var_label var_class var_type var_nlevels contrasts #> -#> 1 Sepal.Width Sepal.Wi~ Sepal.Wi~ numeric continu~ NA -#> 2 Speciessetosa Species Species factor categor~ 3 contr.tr~ -#> 3 Speciesversicolor Species Species factor categor~ 3 contr.tr~ -#> 4 Speciesvirginica Species Species factor categor~ 3 contr.tr~ -#> # ... with 10 more variables: contrasts_type , reference_row , +#> 1 Sepal.Width Sepal.Wi… Sepal.Wi… numeric continu… NA +#> 2 Speciessetosa Species Species factor categor… 3 contr.tr… +#> 3 Speciesversicolor Species Species factor categor… 3 contr.tr… +#> 4 Speciesvirginica Species Species factor categor… 3 contr.tr… +#> # … with 10 more variables: contrasts_type , reference_row , #> # label , n_obs , estimate , std.error , statistic , #> # p.value , conf.low , conf.high dplyr::glimpse(ex1) #> Rows: 4 #> Columns: 17 -#> $ term "Sepal.Width", "Speciessetosa", "Speciesversicolor", "S~ +#> $ term "Sepal.Width", "Speciessetosa", "Speciesversicolor", "S… #> $ variable "Sepal.Width", "Species", "Species", "Species" #> $ var_label "Sepal.Width", "Species", "Species", "Species" #> $ var_class "numeric", "factor", "factor", "factor" -#> $ var_type "continuous", "categorical", "categorical", "categorica~ +#> $ var_type "continuous", "categorical", "categorical", "categorica… #> $ var_nlevels NA, 3, 3, 3 -#> $ contrasts NA, "contr.treatment", "contr.treatment", "contr.treatm~ +#> $ contrasts NA, "contr.treatment", "contr.treatment", "contr.treatm… #> $ contrasts_type NA, "treatment", "treatment", "treatment" #> $ reference_row NA, TRUE, FALSE, FALSE #> $ label "Sepal.Width", "setosa", "versicolor", "virginica" @@ -98,53 +98,53 @@ ex2 <- mod2 %>% add_header_rows = TRUE, show_single_row = "trt" ) -#> Le chargement a nécessité le package : emmeans +#> Loading required namespace: emmeans ex2 -#> # A tibble: 17 x 19 +#> # A tibble: 17 × 19 #> term variable var_label var_class var_type var_nlevels header_row contrasts #> -#> 1 age Age (in ~ nmatrix.3 continu~ NA TRUE -#> 2 poly(~ age Age (in ~ nmatrix.3 continu~ NA FALSE -#> 3 poly(~ age Age (in ~ nmatrix.3 continu~ NA FALSE -#> 4 poly(~ age Age (in ~ nmatrix.3 continu~ NA FALSE -#> 5 stage T Stage factor categor~ 4 TRUE contr.tr~ -#> 6 stage1 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 7 stage2 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 8 stage3 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 9 stage4 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 10 grade Grade factor categor~ 3 TRUE contr.sum -#> 11 grade1 grade Grade factor categor~ 3 FALSE contr.sum -#> 12 grade2 grade Grade factor categor~ 3 FALSE contr.sum -#> 13 grade3 grade Grade factor categor~ 3 FALSE contr.sum -#> 14 trtDr~ trt Chemothe~ character dichoto~ 2 NA contr.tr~ -#> 15 grade:t~ Grade * ~ interac~ NA TRUE -#> 16 grade~ grade:t~ Grade * ~ interac~ NA FALSE -#> 17 grade~ grade:t~ Grade * ~ interac~ NA FALSE -#> # ... with 11 more variables: contrasts_type , reference_row , +#> 1 age Age (in … nmatrix.3 continu… NA TRUE +#> 2 poly(… age Age (in … nmatrix.3 continu… NA FALSE +#> 3 poly(… age Age (in … nmatrix.3 continu… NA FALSE +#> 4 poly(… age Age (in … nmatrix.3 continu… NA FALSE +#> 5 stage T Stage factor categor… 4 TRUE contr.tr… +#> 6 stage1 stage T Stage factor categor… 4 FALSE contr.tr… +#> 7 stage2 stage T Stage factor categor… 4 FALSE contr.tr… +#> 8 stage3 stage T Stage factor categor… 4 FALSE contr.tr… +#> 9 stage4 stage T Stage factor categor… 4 FALSE contr.tr… +#> 10 grade Grade factor categor… 3 TRUE contr.sum +#> 11 grade1 grade Grade factor categor… 3 FALSE contr.sum +#> 12 grade2 grade Grade factor categor… 3 FALSE contr.sum +#> 13 grade3 grade Grade factor categor… 3 FALSE contr.sum +#> 14 trtDr… trt Chemothe… character dichoto… 2 NA contr.tr… +#> 15 grade:t… Grade * … interac… NA TRUE +#> 16 grade… grade:t… Grade * … interac… NA FALSE +#> 17 grade… grade:t… Grade * … interac… NA FALSE +#> # … with 11 more variables: contrasts_type , reference_row , #> # label , n_obs , n_event , estimate , std.error , #> # statistic , p.value , conf.low , conf.high dplyr::glimpse(ex2) #> Rows: 17 #> Columns: 19 -#> $ term NA, "poly(age, 3)1", "poly(age, 3)2", "poly(age, 3)3", ~ -#> $ variable "age", "age", "age", "age", "stage", "stage", "stage", ~ -#> $ var_label "Age (in years)", "Age (in years)", "Age (in years)", "~ -#> $ var_class "nmatrix.3", "nmatrix.3", "nmatrix.3", "nmatrix.3", "fa~ -#> $ var_type "continuous", "continuous", "continuous", "continuous",~ +#> $ term NA, "poly(age, 3)1", "poly(age, 3)2", "poly(age, 3)3", … +#> $ variable "age", "age", "age", "age", "stage", "stage", "stage", … +#> $ var_label "Age (in years)", "Age (in years)", "Age (in years)", "… +#> $ var_class "nmatrix.3", "nmatrix.3", "nmatrix.3", "nmatrix.3", "fa… +#> $ var_type "continuous", "continuous", "continuous", "continuous",… #> $ var_nlevels NA, NA, NA, NA, 4, 4, 4, 4, 4, 3, 3, 3, 3, 2, NA, NA, NA -#> $ header_row TRUE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALSE, F~ -#> $ contrasts NA, NA, NA, NA, "contr.treatment(base=3)", "contr.treat~ -#> $ contrasts_type NA, NA, NA, NA, "treatment", "treatment", "treatment", ~ -#> $ reference_row NA, NA, NA, NA, NA, FALSE, FALSE, TRUE, FALSE, NA, FALS~ -#> $ label "Age (in years)", "Age (in years)", "Age (in years)²", ~ -#> $ n_obs NA, 92, 56, 80, NA, 46, 50, 35, 42, NA, 63, 53, 57, 90,~ -#> $ n_event NA, 31, 17, 22, NA, 17, 12, 13, 12, NA, 20, 16, 18, 30,~ -#> $ estimate NA, 20.2416394, 1.2337899, 0.4931553, NA, 1.0047885, 0.~ -#> $ std.error NA, 2.3254455, 2.3512842, 2.3936657, NA, 0.4959893, 0.5~ -#> $ statistic NA, 1.29340459, 0.08935144, -0.29533409, NA, 0.00963137~ -#> $ p.value NA, 0.1958712, 0.9288026, 0.7677387, NA, 0.9923154, 0.1~ -#> $ conf.low NA, 0.225454425, 0.007493208, 0.004745694, NA, 0.379776~ -#> $ conf.high NA, 2315.587655, 100.318341, 74.226179, NA, 2.683385, 1~ +#> $ header_row TRUE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALSE, F… +#> $ contrasts NA, NA, NA, NA, "contr.treatment(base=3)", "contr.treat… +#> $ contrasts_type NA, NA, NA, NA, "treatment", "treatment", "treatment", … +#> $ reference_row NA, NA, NA, NA, NA, FALSE, FALSE, TRUE, FALSE, NA, FALS… +#> $ label "Age (in years)", "Age (in years)", "Age (in years)²", … +#> $ n_obs NA, 92, 56, 80, NA, 46, 50, 35, 42, NA, 63, 53, 57, 90,… +#> $ n_event NA, 31, 17, 22, NA, 17, 12, 13, 12, NA, 20, 16, 18, 30,… +#> $ estimate NA, 20.2416394, 1.2337899, 0.4931553, NA, 1.0047885, 0.… +#> $ std.error NA, 2.3254455, 2.3512842, 2.3936657, NA, 0.4959893, 0.5… +#> $ statistic NA, 1.29340459, 0.08935144, -0.29533409, NA, 0.00963137… +#> $ p.value NA, 0.1958712, 0.9288026, 0.7677387, NA, 0.9923154, 0.1… +#> $ conf.low NA, 0.225454425, 0.007493208, 0.004745694, NA, 0.379776… +#> $ conf.high NA, 2315.587655, 100.318341, 74.226179, NA, 2.683385, 1… ``` ### fine control @@ -160,26 +160,26 @@ ex3 <- mod1 %>% # remove intercept tidy_remove_intercept ex3 -#> # A tibble: 4 x 16 +#> # A tibble: 4 × 16 #> term variable var_label var_class var_type var_nlevels contrasts #> -#> 1 Sepal.Width Sepal.Wi~ Sepal.Wi~ numeric continu~ NA -#> 2 Speciessetosa Species Species factor categor~ 3 contr.tr~ -#> 3 Speciesversicolor Species Species factor categor~ 3 contr.tr~ -#> 4 Speciesvirginica Species Species factor categor~ 3 contr.tr~ -#> # ... with 9 more variables: contrasts_type , reference_row , +#> 1 Sepal.Width Sepal.Wi… Sepal.Wi… numeric continu… NA +#> 2 Speciessetosa Species Species factor categor… 3 contr.tr… +#> 3 Speciesversicolor Species Species factor categor… 3 contr.tr… +#> 4 Speciesvirginica Species Species factor categor… 3 contr.tr… +#> # … with 9 more variables: contrasts_type , reference_row , #> # label , estimate , std.error , statistic , #> # p.value , conf.low , conf.high dplyr::glimpse(ex3) #> Rows: 4 #> Columns: 16 -#> $ term "Sepal.Width", "Speciessetosa", "Speciesversicolor", "S~ +#> $ term "Sepal.Width", "Speciessetosa", "Speciesversicolor", "S… #> $ variable "Sepal.Width", "Species", "Species", "Species" #> $ var_label "Sepal.Width", "Species", "Species", "Species" #> $ var_class "numeric", "factor", "factor", "factor" -#> $ var_type "continuous", "categorical", "categorical", "categorica~ +#> $ var_type "continuous", "categorical", "categorical", "categorica… #> $ var_nlevels NA, 3, 3, 3 -#> $ contrasts NA, "contr.treatment", "contr.treatment", "contr.treatm~ +#> $ contrasts NA, "contr.treatment", "contr.treatment", "contr.treatm… #> $ contrasts_type NA, "treatment", "treatment", "treatment" #> $ reference_row NA, TRUE, FALSE, FALSE #> $ label "Sepal.Width", "setosa", "versicolor", "virginica" @@ -201,50 +201,50 @@ ex4 <- mod2 %>% # add header rows for categorical variables tidy_add_header_rows() ex4 -#> # A tibble: 20 x 17 +#> # A tibble: 20 × 17 #> term variable var_label var_class var_type var_nlevels header_row contrasts #> -#> 1 (Inte~ (Interc~ (Interce~ interce~ NA NA -#> 2 age Age in y~ nmatrix.3 continu~ NA TRUE -#> 3 poly(~ age Age in y~ nmatrix.3 continu~ NA FALSE -#> 4 poly(~ age Age in y~ nmatrix.3 continu~ NA FALSE -#> 5 poly(~ age Age in y~ nmatrix.3 continu~ NA FALSE -#> 6 stage T Stage factor categor~ 4 TRUE contr.tr~ -#> 7 stage1 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 8 stage2 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 9 stage3 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 10 stage4 stage T Stage factor categor~ 4 FALSE contr.tr~ -#> 11 grade Grade factor categor~ 3 TRUE contr.sum -#> 12 grade1 grade Grade factor categor~ 3 FALSE contr.sum -#> 13 grade2 grade Grade factor categor~ 3 FALSE contr.sum -#> 14 grade3 grade Grade factor categor~ 3 FALSE contr.sum -#> 15 trt Chemothe~ character dichoto~ 2 TRUE contr.tr~ -#> 16 trtDr~ trt Chemothe~ character dichoto~ 2 FALSE contr.tr~ -#> 17 trtDr~ trt Chemothe~ character dichoto~ 2 FALSE contr.tr~ -#> 18 grade:t~ Grade * ~ interac~ NA TRUE -#> 19 grade~ grade:t~ Grade * ~ interac~ NA FALSE -#> 20 grade~ grade:t~ Grade * ~ interac~ NA FALSE -#> # ... with 9 more variables: contrasts_type , reference_row , +#> 1 (Inte… (Interc… (Interce… interce… NA NA +#> 2 age Age in y… nmatrix.3 continu… NA TRUE +#> 3 poly(… age Age in y… nmatrix.3 continu… NA FALSE +#> 4 poly(… age Age in y… nmatrix.3 continu… NA FALSE +#> 5 poly(… age Age in y… nmatrix.3 continu… NA FALSE +#> 6 stage T Stage factor categor… 4 TRUE contr.tr… +#> 7 stage1 stage T Stage factor categor… 4 FALSE contr.tr… +#> 8 stage2 stage T Stage factor categor… 4 FALSE contr.tr… +#> 9 stage3 stage T Stage factor categor… 4 FALSE contr.tr… +#> 10 stage4 stage T Stage factor categor… 4 FALSE contr.tr… +#> 11 grade Grade factor categor… 3 TRUE contr.sum +#> 12 grade1 grade Grade factor categor… 3 FALSE contr.sum +#> 13 grade2 grade Grade factor categor… 3 FALSE contr.sum +#> 14 grade3 grade Grade factor categor… 3 FALSE contr.sum +#> 15 trt Chemothe… character dichoto… 2 TRUE contr.tr… +#> 16 trtDr… trt Chemothe… character dichoto… 2 FALSE contr.tr… +#> 17 trtDr… trt Chemothe… character dichoto… 2 FALSE contr.tr… +#> 18 grade:t… Grade * … interac… NA TRUE +#> 19 grade… grade:t… Grade * … interac… NA FALSE +#> 20 grade… grade:t… Grade * … interac… NA FALSE +#> # … with 9 more variables: contrasts_type , reference_row , #> # label , estimate , std.error , statistic , #> # p.value , conf.low , conf.high dplyr::glimpse(ex4) #> Rows: 20 #> Columns: 17 -#> $ term "(Intercept)", NA, "poly(age, 3)1", "poly(age, 3)2", "p~ -#> $ variable "(Intercept)", "age", "age", "age", "age", "stage", "st~ -#> $ var_label "(Intercept)", "Age in years", "Age in years", "Age in ~ -#> $ var_class NA, "nmatrix.3", "nmatrix.3", "nmatrix.3", "nmatrix.3",~ -#> $ var_type "intercept", "continuous", "continuous", "continuous", ~ -#> $ var_nlevels NA, NA, NA, NA, NA, 4, 4, 4, 4, 4, 3, 3, 3, 3, 2, 2, 2,~ -#> $ header_row NA, TRUE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALS~ -#> $ contrasts NA, NA, NA, NA, NA, "contr.treatment(base=3)", "contr.t~ -#> $ contrasts_type NA, NA, NA, NA, NA, "treatment", "treatment", "treatmen~ -#> $ reference_row NA, NA, NA, NA, NA, NA, FALSE, FALSE, TRUE, FALSE, NA, ~ -#> $ label "(Intercept)", "Age in years", "Age in years", "Age in ~ -#> $ estimate 0.5266376, NA, 20.2416394, 1.2337899, 0.4931553, NA, 1.~ -#> $ std.error 0.4130930, NA, 2.3254455, 2.3512842, 2.3936657, NA, 0.4~ -#> $ statistic -1.55229592, NA, 1.29340459, 0.08935144, -0.29533409, N~ -#> $ p.value 0.1205914, NA, 0.1958712, 0.9288026, 0.7677387, NA, 0.9~ -#> $ conf.low 0.227717775, NA, 0.225454425, 0.007493208, 0.004745694,~ -#> $ conf.high 1.164600, NA, 2315.587655, 100.318341, 74.226179, NA, 2~ +#> $ term "(Intercept)", NA, "poly(age, 3)1", "poly(age, 3)2", "p… +#> $ variable "(Intercept)", "age", "age", "age", "age", "stage", "st… +#> $ var_label "(Intercept)", "Age in years", "Age in years", "Age in … +#> $ var_class NA, "nmatrix.3", "nmatrix.3", "nmatrix.3", "nmatrix.3",… +#> $ var_type "intercept", "continuous", "continuous", "continuous", … +#> $ var_nlevels NA, NA, NA, NA, NA, 4, 4, 4, 4, 4, 3, 3, 3, 3, 2, 2, 2,… +#> $ header_row NA, TRUE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALS… +#> $ contrasts NA, NA, NA, NA, NA, "contr.treatment(base=3)", "contr.t… +#> $ contrasts_type NA, NA, NA, NA, NA, "treatment", "treatment", "treatmen… +#> $ reference_row NA, NA, NA, NA, NA, NA, FALSE, FALSE, TRUE, FALSE, NA, … +#> $ label "(Intercept)", "Age in years", "Age in years", "Age in … +#> $ estimate 0.5266376, NA, 20.2416394, 1.2337899, 0.4931553, NA, 1.… +#> $ std.error 0.4130930, NA, 2.3254455, 2.3512842, 2.3936657, NA, 0.4… +#> $ statistic -1.55229592, NA, 1.29340459, 0.08935144, -0.29533409, N… +#> $ p.value 0.1205914, NA, 0.1958712, 0.9288026, 0.7677387, NA, 0.9… +#> $ conf.low 0.227717775, NA, 0.225454425, 0.007493208, 0.004745694,… +#> $ conf.high 1.164600, NA, 2315.587655, 100.318341, 74.226179, NA, 2… ```