使用带有list参数的dplyr :: quos（）而不是省略号参数

时间：2018-04-14 00:03:11

标签： r dplyr tidyeval

我正在使用dplyr并尝试创建一个函数来根据分组参数计算p.values。我希望能够有一个参数，列出任何长度的变量来分组。以下是示例数据集：

dataset <- structure(list(Experiment = c(170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170222, 170222, 170222, 170222, 
170222, 170222, 170222, 170222, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824, 170824, 170824, 170824, 170824, 
170824, 170824, 170824, 170824), Sample = c("1: FL_496", "1: FL_496", 
"1: FL_496", "1: FL_496", "1: FL_496", "1: FL_496", "1: FL_496", 
"1: FL_496", "2: FL_505", "2: FL_505", "2: FL_505", "2: FL_505", 
"2: FL_505", "2: FL_505", "2: FL_505", "2: FL_505", "3: FL_509", 
"3: FL_509", "3: FL_509", "3: FL_509", "3: FL_509", "3: FL_509", 
"3: FL_509", "3: FL_509", "4: FL_514", "4: FL_514", "4: FL_514", 
"4: FL_514", "4: FL_514", "4: FL_514", "4: FL_514", "4: FL_514", 
"5: cKO_497", "5: cKO_497", "5: cKO_497", "5: cKO_497", "5: cKO_497", 
"5: cKO_497", "5: cKO_497", "5: cKO_497", "6: cKO_504", "6: cKO_504", 
"6: cKO_504", "6: cKO_504", "6: cKO_504", "6: cKO_504", "6: cKO_504", 
"6: cKO_504", "7: cKO_510", "7: cKO_510", "7: cKO_510", "7: cKO_510", 
"7: cKO_510", "7: cKO_510", "7: cKO_510", "7: cKO_510", "8: cKO_515", 
"8: cKO_515", "8: cKO_515", "8: cKO_515", "8: cKO_515", "8: cKO_515", 
"8: cKO_515", "8: cKO_515", "9: cKO_517", "9: cKO_517", "9: cKO_517", 
"9: cKO_517", "9: cKO_517", "9: cKO_517", "9: cKO_517", "9: cKO_517", 
NA, NA, NA, NA, NA, NA, NA, NA, "1: FL_627", "1: FL_627", "1: FL_627", 
"1: FL_627", "1: FL_627", "1: FL_627", "2: FL_628", "2: FL_628", 
"2: FL_628", "2: FL_628", "2: FL_628", "2: FL_628", "3: FL_633", 
"3: FL_633", "3: FL_633", "3: FL_633", "3: FL_633", "3: FL_633", 
"4: FL_636", "4: FL_636", "4: FL_636", "4: FL_636", "4: FL_636", 
"4: FL_636", "5: cKO_620", "5: cKO_620", "5: cKO_620", "5: cKO_620", 
"5: cKO_620", "5: cKO_620", "6: cKO_625", "6: cKO_625", "6: cKO_625", 
"6: cKO_625", "6: cKO_625", "6: cKO_625", "7: cKO_626", "7: cKO_626", 
"7: cKO_626", "7: cKO_626", "7: cKO_626", "7: cKO_626", "8: cKO_634", 
"8: cKO_634", "8: cKO_634", "8: cKO_634", "8: cKO_634", "8: cKO_634", 
"cKO_620", "cKO_620", "cKO_625", "cKO_625", "cKO_626", "cKO_626", 
"cKO_634", "cKO_634", "FL_627", "FL_627", "FL_628", "FL_628", 
"FL_633", "FL_633", "FL_636", "FL_636"), Genotype = structure(c(1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 2L, 
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 
2L, 2L, 2L, 2L, 2L, 2L, 2L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 
2L, 2L, 2L, 2L, 2L, 2L, 2L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L), .Label = c("miR-15/16 FL", 
"miR-15/16 cKO"), class = "factor"), variable = c("% CD127+", 
"% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", 
"% KLRG1+", "% KLRG1+", "% KLRG1+", "% CD127+", "% CD127+", "% CD127+", 
"% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", "% KLRG1+", "% CD127+", 
"% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", 
"% KLRG1+", "% KLRG1+", "% KLRG1+", "% CD127+", "% CD127+", "% CD127+", 
"% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", "% KLRG1+", "% CD127+", 
"% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", 
"% KLRG1+", "% KLRG1+", "% KLRG1+", "% CD127+", "% CD127+", "% CD127+", 
"% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", "% KLRG1+", "% CD127+", 
"% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% CD127+", "% CD127+", "% KLRG1+", "% KLRG1+", 
"% KLRG1+", "% CD127+", "% KLRG1+", "% CD127+", "% KLRG1+", "% CD127+", 
"% KLRG1+", "% CD127+", "% KLRG1+", "% CD127+", "% KLRG1+", "% CD127+", 
"% KLRG1+", "% CD127+", "% KLRG1+", "% CD127+", "% KLRG1+"), 
    value = c(1, 28.7, 40.1, 47.4, 64.1, 69.9, 73.1, 79.42, 0.99, 
    21.72, 33, 56.6, 55.5, 82.9, 84.96, 86.7, 3.94, 43.4, 49.5, 
    60.8, 57.1, 69.8, 71.4, 77.72, 1, 20.56, 28.77, 35.1, 71.07, 
    71.2, 78.16, 84.04, 3.77, 56.9, 60.5, 66.5, 43.7, 50.36, 
    50.8, 51.8, 3.24, 58.2, 59.8, 70.8, 47.9, 58.5, 59.5, 61.3, 
    4.21, 62, 65.7, 73.8, 40, 51.5, 53.1, 55.69, 9.48, 41.7, 
    44, 63, 53.7, 57.31, 60.4, 60.8, 3.84, 34.1, 41.1, 53.2, 
    55.07, 55.3, 62.2, 76.6, NA, NA, NA, NA, NA, NA, NA, NA, 
    12.01, 18.5, 20.99, 66.39, 77.2, 85.6, 12.8, 31.3, 35.11, 
    59.8, 85.5, 89.7, 32.1, 33.3, 34.7, 63.2, 71.6, 80.5, 15.3, 
    17.02, 33.5, 65.54, 82.7, 85.8, 41.61, 51.3, 69.3, 39.81, 
    59, 62, 46.6, 52.1, 67.8, 39.5, 58.8, 66, 52.2, 52.9, 68.7, 
    46, 55.9, 61.6, 45.17, 59.9, 74.3, 31.87, 48.4, 51.2, 6.2, 
    56.34, 4.17, 70.85, 3.54, 59.89, 5.61, 49.71, 1.87, 77.09, 
    0.51, 86.05, 1.8, 80.69, 2.15, 79.43), Day = structure(c(1L, 
    2L, 3L, 4L, 4L, 3L, 2L, 1L, 1L, 3L, 4L, 2L, 2L, 4L, 1L, 3L, 
    1L, 3L, 2L, 4L, 4L, 2L, 3L, 1L, 1L, 3L, 4L, 2L, 4L, 2L, 3L, 
    1L, 1L, 3L, 2L, 4L, 4L, 1L, 2L, 3L, 1L, 3L, 2L, 4L, 4L, 2L, 
    3L, 1L, 1L, 3L, 2L, 4L, 4L, 3L, 2L, 1L, 1L, 3L, 4L, 2L, 2L, 
    1L, 4L, 3L, 1L, 2L, 3L, 4L, 1L, 4L, 3L, 2L, 2L, 3L, 4L, 1L, 
    2L, 3L, 4L, 1L, 3L, 2L, 4L, 3L, 2L, 4L, 2L, 3L, 4L, 3L, 2L, 
    4L, 2L, 3L, 4L, 3L, 2L, 4L, 2L, 3L, 4L, 3L, 4L, 2L, 3L, 2L, 
    4L, 3L, 2L, 4L, 3L, 2L, 4L, 3L, 2L, 4L, 3L, 2L, 4L, 3L, 2L, 
    4L, 3L, 2L, 4L, 3L, 2L, 4L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
    1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L), .Label = c("8", "15", "22", 
    "30+"), class = "factor")), class = "data.frame", row.names = c(NA, 
-144L), .Names = c("Experiment", "Sample", "Genotype", "variable", 
"value", "Day"))

这是我使用的函数... 

grouped.t.test <- function(dataset, subset.plot, comparison, ...)
  {
  group.by <- quos(...)
  if (is.null(subset.plot)){
    subset.plot <- dataset[['variable']]
    }
  filter(dataset, variable %in% subset.plot) %>%
    group_by(!!!group.by) %>%
    do(tidy(t.test(x = .$value[.[comparison] == levels(.[[comparison]])[1]],
                   y = .$value[.[comparison] == levels(.[[comparison]])[2]]))) %>%
    mutate(p.value.format = symnum(p.value, corr = FALSE, na = FALSE, cutpoints = c(0, 0.0001, 0.001, 0.01, 0.05, 1), symbols = c("****", "***", "**", "*", NA))) %>%
    arrange(!!!group.by)
  }
View(grouped.t.test(dataset = dataset, subset.plot = NULL, comparison = 'Genotype', variable, Day))

我希望能够用参数替换...（例如，group_vars）并将其称为：

View(grouped.t.test(dataset = dataset, subset.plot = NULL, comparison = 'Genotype', group_vars = c(variable, Day)))

这似乎与quos（）无关，但我不明白为什么。 能够使用多个列表参数并且可以独立使用（例如，创建一个参数＆＃34; arrange.by＆＃34;这将是要传递到的排列的变量列表，这将是很好的。功能

我非常感谢任何帮助，了解为什么这不起作用，我可以做什么呢！

1 个答案:

答案 0 :(得分：3)

如@lionel所述 - dplyr

中grouped.t.test2 <- function(dataset, subset.plot, comparison, group_vars) { if (is.null(subset.plot)) { subset.plot <- dataset[['variable']] } filter(dataset, variable %in% subset.plot) %>% group_by(!!! group_vars) %>% do(tidy(t.test(x = .$value[.[comparison] == levels(.[[comparison]])[1]], y = .$value[.[comparison] == levels(.[[comparison]])[2]]))) %>% mutate(p.value.format = symnum(p.value, corr = FALSE, na = FALSE, cutpoints = c(0, 0.0001, 0.001, 0.01, 0.05, 1), symbols = c("****", "***", "**", "*", NA))) %>% arrange(!!! group_vars) } grouped.t.test2(dataset = dataset, subset.plot = NULL, comparison = 'Genotype', alist(variable, Day)) # or grouped.t.test2(dataset = dataset, subset.plot = NULL, comparison = 'Genotype', dplyr::vars(variable, Day)) # A tibble: 8 x 13 # Groups: variable, Day [8] variable Day estimate estimate1 estimate2 statistic p.value parameter <fct> <fct> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> 1 % CD127+ 8 -3.24 1.66 4.90 -4.26 9.93e-4 12.6 2 % CD127+ 15 -24.4 31.1 55.5 -3.80 2.88e-3 11.2 3 % CD127+ 22 -22.1 27.4 49.5 -4.60 5.54e-4 12.5 4 % CD127+ 30+ -28.6 36.8 65.4 -5.23 1.36e-4 13.7 5 % KLRG1+ 8 23.8 81.2 57.4 9.79 3.11e-7 12.5 6 % KLRG1+ 15 16.5 73.7 57.2 3.78 2.08e-3 13.8 7 % KLRG1+ 22 20.9 70.1 49.2 4.44 4.82e-4 14.9 8 % KLRG1+ 30+ 22.5 76.7 54.2 4.46 6.01e-4 13.4 # ... with 5 more variables: conf.low <dbl>, conf.high <dbl>, # method <fct>, alternative <fct>, p.value.format <chr> 的主要开发人员之一
  

您希望引用是外部的，并由用户显式完成，而不是由函数隐式完成。为此，您可以要求您的用户引用base :: alist（），rlang :: exprs（）或dplyr :: vars（）

你可以为你的问题做这样的事情

{{1}}
相关问题
最新问题