Nothing
# Setup -------------------------------------------------------------------
statistics <- list()
# t.test() ----------------------------------------------------------------
sleep_wide <- reshape(
sleep,
direction = "wide",
idvar = "ID",
timevar = "group",
sep = "_"
)
t_test_one_sample <- t.test(extra ~ 1, data = sleep)
t_test_two_sample <- t.test(extra ~ group, data = sleep, var.equal = TRUE)
t_test_welch <- t.test(extra ~ group, data = sleep)
t_test_paired <- t.test(sleep_wide$extra_1, sleep_wide$extra_2, paired = TRUE)
statistics <- statistics |>
add_stats(t_test_one_sample) |>
add_stats(t_test_two_sample) |>
add_stats(t_test_welch) |>
add_stats(t_test_paired)
t_test_one_sample
t_test_two_sample
t_test_welch
t_test_paired
# cor.test() --------------------------------------------------------------
x <- c(44.4, 45.9, 41.9, 53.3, 44.7, 44.1, 50.7, 45.2, 60.1)
y <- c(2.6, 3.1, 2.5, 5.0, 3.6, 4.0, 5.2, 2.8, 3.8)
correlation_pearson <- cor.test(x, y, method = "pearson")
correlation_kendall <- cor.test(x, y, method = "kendall")
correlation_spearman <- cor.test(x, y, method = "spearman")
statistics <- statistics |>
add_stats(correlation_pearson) |>
add_stats(correlation_kendall) |>
add_stats(correlation_spearman)
correlation_pearson
correlation_kendall
correlation_spearman
# chisq.test() ------------------------------------------------------------
M <- as.table(rbind(c(762, 327, 468), c(484, 239, 477)))
dimnames(M) <- list(gender = c("F", "M"), party = c(
"Democrat", "Independent",
"Republican"
))
x <- matrix(c(12, 5, 7, 7), ncol = 2)
y <- c(A = 20, B = 15, C = 25)
chi_squared <- chisq.test(M)
chi_squared_yates <- chisq.test(x)
chi_squared_prob <- chisq.test(y)
statistics <- statistics |>
add_stats(chi_squared) |>
add_stats(chi_squared_yates) |>
add_stats(chi_squared_prob)
chi_squared
chi_squared_yates
chi_squared_prob
# prop.test() -------------------------------------------------------------
set.seed(1)
heads <- rbinom(1, size = 100, prob = .5)
smokers <- c(83, 90, 129, 70)
patients <- c(86, 93, 136, 82)
prop_test <- prop.test(heads, 100)
prop_test_correct <- prop.test(heads, 100, correct = FALSE)
prop_test_smokers <- prop.test(smokers, patients)
statistics <- statistics |>
add_stats(prop_test) |>
add_stats(prop_test_correct) |>
add_stats(prop_test_smokers)
prop_test
prop_test_correct
prop_test_smokers
# prop.trend.test() ------------------------------------------------------
prop_trend_test <- prop.trend.test(smokers, patients)
prop_trend_test_scores <- prop.trend.test(smokers, patients, c(0, 0, 0, 1))
statistics <- statistics |>
add_stats(prop_trend_test) |>
add_stats(prop_trend_test_scores)
prop_trend_test
prop_trend_test_scores
# wilcox.test() -----------------------------------------------------------
x <- c(1.83, 0.50, 1.62, 2.48, 1.68, 1.88, 1.55, 3.06, 1.30)
y <- c(0.878, 0.647, 0.598, 2.05, 1.06, 1.29, 1.06, 3.14, 1.29)
wilcoxon_signed_rank <- wilcox.test(x, y,
paired = TRUE,
alternative = "greater"
)
wilcoxon_rank_sum_continuity <- wilcox.test(Ozone ~ Month,
data = airquality,
subset = Month %in% c(5, 8)
)
x <- c(0.80, 0.83, 1.89, 1.04, 1.45, 1.38, 1.91, 1.64, 0.73, 1.46)
y <- c(1.15, 0.88, 0.90, 0.74, 1.21)
wilcoxon_rank_sum <- wilcox.test(x, y,
alternative = "greater", exact = FALSE,
correct = FALSE
)
wilcoxon_rank_sum_conf <- wilcox.test(x, y, conf.int = TRUE, conf.level = .9)
statistics <- statistics |>
add_stats(wilcoxon_signed_rank) |>
add_stats(wilcoxon_rank_sum_continuity) |>
add_stats(wilcoxon_rank_sum) |>
add_stats(wilcoxon_rank_sum_conf)
wilcoxon_signed_rank
wilcoxon_rank_sum_continuity
wilcoxon_rank_sum
wilcoxon_rank_sum_conf
# kruskal.test() ----------------------------------------------------------
x <- c(2.9, 3.0, 2.5, 2.6, 3.2)
y <- c(3.8, 2.7, 4.0, 2.4)
z <- c(2.8, 3.4, 3.7, 2.2, 2.0)
kruskal <- kruskal.test(list(x, y, z))
kruskal_formula <- kruskal.test(Ozone ~ Month, data = airquality)
statistics <- statistics |>
add_stats(kruskal) |>
add_stats(kruskal_formula)
kruskal
kruskal_formula
# fisher.test() -----------------------------------------------------------
set.seed(2015)
TeaTasting <- matrix(
data = c(3, 1, 1, 3),
nrow = 2,
dimnames = list(Guess = c("Milk", "Tea"), Truth = c("Milk", "Tea"))
)
Convictions <- matrix(
data = c(2, 10, 15, 3),
nrow = 2,
dimnames = list(
c("Dizygotic", "Monozygotic"),
c("Convicted", "Not convicted")
)
)
Job <- matrix(
data = c(1, 2, 1, 0, 3, 3, 6, 1, 10, 10, 14, 9, 6, 7, 12, 11),
nrow = 4,
ncol = 4,
dimnames = list(
income = c("< 15k", "15-25k", "25-40k", "> 40k"),
satisfaction = c("VeryD", "LittleD", "ModerateS", "VeryS")
)
)
MP6 <- rbind(
c(1, 2, 2, 1, 1, 0, 1),
c(2, 0, 0, 2, 3, 0, 0),
c(0, 1, 1, 1, 2, 7, 3),
c(1, 1, 2, 0, 0, 0, 1),
c(0, 1, 1, 1, 1, 0, 0)
)
fisher_test <- fisher.test(TeaTasting, alternative = "greater")
fisher_test_no_CI <- fisher.test(Convictions, conf.int = FALSE)
fisher_test_r_by_c <- fisher.test(Job)
fisher_test_simulated_p <- fisher.test(Job, simulate.p.value = TRUE, B = 1e5)
fisher_test_hybrid <- fisher.test(MP6, hybrid = TRUE)
statistics <- statistics |>
add_stats(fisher_test) |>
add_stats(fisher_test_no_CI) |>
add_stats(fisher_test_r_by_c) |>
add_stats(fisher_test_simulated_p) |>
add_stats(fisher_test_hybrid)
fisher_test
fisher_test_no_CI
fisher_test_r_by_c
fisher_test_simulated_p
fisher_test_hybrid
# ks.test() ---------------------------------------------------------------
set.seed(1)
x <- rnorm(50)
y <- runif(30)
ks_test_two <- ks.test(x, y)
ks_test_one <- ks.test(x + 2, "pgamma", 3, 2)
ks_test_inexact <- ks.test(x + 2, "pgamma", 3, 2, exact = FALSE)
ks_test_greater <- ks.test(x + 2, "pgamma", 3, 2, alternative = "greater")
statistics <- statistics |>
add_stats(ks_test_two) |>
add_stats(ks_test_one) |>
add_stats(ks_test_inexact) |>
add_stats(ks_test_greater)
ks_test_two
ks_test_one
ks_test_inexact
ks_test_greater
# oneway.test() -----------------------------------------------------------
oneway_test <- oneway.test(extra ~ group, data = sleep)
oneway_test_equal_var <- oneway.test(extra ~ group,
data = sleep,
var.equal = TRUE
)
statistics <- statistics |>
add_stats(oneway_test) |>
add_stats(oneway_test_equal_var)
oneway_test
oneway_test_equal_var
# var.test() --------------------------------------------------------------
set.seed(1)
x <- rnorm(50, mean = 0, sd = 2)
y <- rnorm(30, mean = 1, sd = 1)
var_test <- var.test(x, y)
statistics <- add_stats(statistics, var_test)
var_test
# mauchly.test() ----------------------------------------------------------
example(SSD)
idata <- data.frame(
deg = gl(3, 1, 6, labels = c(0, 4, 8)),
noise = gl(2, 3, 6, labels = c("A", "P"))
)
mauchly_test <- mauchly.test(mlmfit, X = ~1)
mauchly_test_orthogonal <- mauchly.test(
mlmfit,
X = ~ deg + noise,
idata = idata
)
mauchly_test_spanned <- mauchly.test(
mlmfit,
M = ~ deg + noise, X = ~noise,
idata = idata
)
statistics <- statistics |>
add_stats(mauchly_test) |>
add_stats(mauchly_test_orthogonal) |>
add_stats(mauchly_test_spanned)
mauchly_test
mauchly_test_orthogonal
mauchly_test_spanned
# mcnemar.test() ---------------------------------------------------------
Performance <- matrix(
data = c(794, 86, 150, 570),
nrow = 2,
dimnames = list(
"1st Survey" = c("Approve", "Disapprove"),
"2nd Survey" = c("Approve", "Disapprove")
)
)
mcnemar_test <- mcnemar.test(Performance)
mcnemar_test_nocorrect <- mcnemar.test(Performance, correct = FALSE)
statistics <- statistics |>
add_stats(mcnemar_test) |>
add_stats(mcnemar_test_nocorrect)
mcnemar_test
mcnemar_test_nocorrect
# binom.test() -----------------------------------------------------------
binom_test <- binom.test(c(682, 243))
binom_test_params <- binom.test(c(682, 243), p = 3 / 4, alternative = "less")
statistics <- statistics |>
add_stats(binom_test) |>
add_stats(binom_test_params)
binom_test
binom_test_params
# PP.test() ---------------------------------------------------------------
set.seed(1)
x <- rnorm(1000)
y <- cumsum(x)
pp_test <- PP.test(x)
pp_test_long <- PP.test(y, lshort = FALSE)
statistics <- statistics |>
add_stats(pp_test) |>
add_stats(pp_test_long)
pp_test
pp_test_long
# Box.test() --------------------------------------------------------------
set.seed(1)
x <- rnorm(100)
box_test <- Box.test(x, lag = 1)
box_test_ljung <- Box.test(x, lag = 2, type = "Ljung")
statistics <- statistics |>
add_stats(box_test) |>
add_stats(box_test_ljung)
box_test
box_test_ljung
# ansari.test() -----------------------------------------------------------
set.seed(1)
ramsay <- c(
111, 107, 100, 99, 102, 106, 109, 108, 104, 99, 101, 96, 97, 102, 107, 113,
116, 113, 110, 98
)
jung_parekh <- c(
107, 108, 106, 98, 105, 103, 110, 105, 104, 100, 96, 108, 103, 104, 114, 114,
113, 108, 106, 99
)
ansari_test <- ansari.test(ramsay, jung_parekh)
ansari_test_ci <- ansari.test(rnorm(100), rnorm(100, 0, 2), conf.int = TRUE)
statistics <- statistics |>
add_stats(ansari_test) |>
add_stats(ansari_test_ci)
ansari_test
ansari_test_ci
# mood.test() -------------------------------------------------------------
ramsay <- c(
111, 107, 100, 99, 102, 106, 109, 108, 104, 99,
101, 96, 97, 102, 107, 113, 116, 113, 110, 98
)
jung_parekh <- c(
107, 108, 106, 98, 105, 103, 110, 105, 104,
100, 96, 108, 103, 104, 114, 114, 113, 108, 106, 99
)
mood_test <- mood.test(ramsay, jung_parekh)
statistics <- add_stats(statistics, mood_test)
mood_test
# quade.test() ------------------------------------------------------------
dataFreq <- matrix(
nrow = 7,
byrow = TRUE,
data = c(
5, 4, 7, 10, 12,
1, 3, 1, 0, 2,
16, 12, 22, 22, 35,
5, 4, 3, 5, 4,
10, 9, 7, 13, 10,
19, 18, 28, 37, 58,
10, 7, 6, 8, 7
),
dimnames = list(Store = as.character(1:7), Brand = LETTERS[1:5])
)
quade_test <- quade.test(dataFreq)
statistics <- add_stats(statistics, quade_test)
quade_test
# bartlett.test() ---------------------------------------------------------
bartlett_test <- bartlett.test(InsectSprays$count, InsectSprays$spray)
statistics <- add_stats(statistics, bartlett_test)
bartlett_test
# fligner.test() ----------------------------------------------------------
fligner_test <- fligner.test(InsectSprays$count, InsectSprays$spray)
statistics <- add_stats(statistics, fligner_test)
fligner_test
# poisson.test() ----------------------------------------------------------
poisson_test <- poisson.test(137, 24.19893)
poisson_test_comparison <- poisson.test(
x = c(11, 6 + 8 + 7),
T = c(800, 1083 + 1050 + 878)
)
statistics <- statistics |>
add_stats(poisson_test) |>
add_stats(poisson_test_comparison)
poisson_test
poisson_test_comparison
# shapiro.test() ----------------------------------------------------------
set.seed(1)
shapiro_test <- shapiro.test(runif(100, min = 2, max = 4))
statistics <- add_stats(statistics, shapiro_test)
shapiro_test
# friedman.test() ---------------------------------------------------------
rounding_times <- matrix(
nrow = 22,
byrow = TRUE,
data = c(
5.40, 5.50, 5.55,
5.85, 5.70, 5.75,
5.20, 5.60, 5.50,
5.55, 5.50, 5.40,
5.90, 5.85, 5.70,
5.45, 5.55, 5.60,
5.40, 5.40, 5.35,
5.45, 5.50, 5.35,
5.25, 5.15, 5.00,
5.85, 5.80, 5.70,
5.25, 5.20, 5.10,
5.65, 5.55, 5.45,
5.60, 5.35, 5.45,
5.05, 5.00, 4.95,
5.50, 5.50, 5.40,
5.45, 5.55, 5.50,
5.55, 5.55, 5.35,
5.45, 5.50, 5.55,
5.50, 5.45, 5.25,
5.65, 5.60, 5.40,
5.70, 5.65, 5.55,
6.30, 6.30, 6.25
),
dimnames = list(1:22, c("Round Out", "Narrow Angle", "Wide Angle"))
)
friedman_test <- friedman.test(rounding_times)
statistics <- add_stats(statistics, friedman_test)
friedman_test
# mantelhaen.test() -------------------------------------------------------
Satisfaction <- as.table(
array(
dim = c(4, 4, 2),
data = c(
1, 2, 0, 0, 3, 3, 1, 2,
11, 17, 8, 4, 2, 3, 5, 2,
1, 0, 0, 0, 1, 3, 0, 1,
2, 5, 7, 9, 1, 1, 3, 6
),
dimnames = list(
Income = c("<5000", "5000-15000", "15000-25000", ">25000"),
`Job Satisfaction` = c("V_D", "L_S", "M_S", "V_S"),
Gender = c("Female", "Male")
)
)
)
Rabbits <- array(
dim = c(2, 2, 5),
data = c(
0, 0, 6, 5,
3, 0, 3, 6,
6, 2, 0, 4,
5, 6, 1, 0,
2, 5, 0, 0
),
dimnames = list(
Delay = c("None", "1.5h"),
Response = c("Cured", "Died"),
Penicillin.Level = c("1/8", "1/4", "1/2", "1", "4")
)
)
mantelhaen_test <- mantelhaen.test(Satisfaction)
mantelhaen_test_2by2 <- mantelhaen.test(Rabbits)
mantelhaen_test_2by2_exact <- mantelhaen.test(Rabbits, exact = TRUE)
statistics <- statistics |>
add_stats(mantelhaen_test) |>
add_stats(mantelhaen_test_2by2) |>
add_stats(mantelhaen_test_2by2_exact)
mantelhaen_test
mantelhaen_test_2by2
mantelhaen_test_2by2_exact
# tidy_stats_to_data_frame() ----------------------------------------------
df <- tidy_stats_to_data_frame(statistics)
# write_stats() -----------------------------------------------------------
write_test_stats(statistics, "tests/data/htest.json")
# Cleanup -----------------------------------------------------------------
rm(
ansari_test, ansari_test_ci, bartlett_test, binom_test, binom_test_params,
box_test, box_test_ljung, chi_squared, chi_squared_prob, chi_squared_yates,
Convictions, correlation_kendall, correlation_pearson, correlation_spearman,
dataFreq, df, fisher_test, fisher_test_hybrid, fisher_test_no_CI,
fisher_test_r_by_c, fisher_test_simulated_p, fligner_test, friedman_test,
idata, Job, kruskal, kruskal_formula, ks_test_greater, ks_test_inexact,
ks_test_one, ks_test_two, mantelhaen_test, mantelhaen_test_2by2,
mantelhaen_test_2by2_exact, mauchly_test, mauchly_test_orthogonal,
mauchly_test_spanned, mcnemar_test, mcnemar_test_nocorrect, mlmfit,
mood_test, MP6, oneway_test, oneway_test_equal_var, Performance, poisson_test,
poisson_test_comparison, pp_test, pp_test_long, prop_test, prop_test_correct,
prop_test_smokers, prop_trend_test, prop_trend_test_scores, quade_test,
reacttime, rounding_times, shapiro_test, statistics, t_test_one_sample,
t_test_paired, t_test_two_sample, t_test_welch, TeaTasting, var_test,
wilcoxon_rank_sum, wilcoxon_rank_sum_conf, wilcoxon_rank_sum_continuity,
wilcoxon_signed_rank, heads, jung_parekh, M, patients, Rabbits, ramsay,
Satisfaction, smokers, x, y, z, sleep_wide
)
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