Question

这是我的小词

    protein patient           value 
  <chr>   <chr>             <dbl> 
1 BOD1L2  RF0064_Case-9-d-   10.4  
2 PPFIA2  RF0064_Case-20-d-  7.83 
3 STAT4   RF0064_Case-11-d-  11.0 
4 TOM1L2  RF0064_Case-29-d-  13.0  
5 SH2D2A  RF0064_Case-2-d-   8.28  
6 TIGD4   RF0064_Case-49-d-  9.71

在“患者”列中，如“案例x-d”中的“ d”表示天数。我想做的是创建一个新列，说明“患者”列中的字符串是否包含小于14d的值。

我已经使用以下命令设法做到了：

under14 <- "-1d|-2d|-3d|-4d|-4d|-5d|-6d|-7d|-8d|-9d|-11d|-12d|-13d|-14d"

data <- data %>%
    mutate(case=ifelse(grepl(under14,data$patient),'under14days','over14days'))

但是，这似乎非常笨拙，实际上已经花了很长时间才键入。我将不得不多次更改搜索字词，因此想要更快的方法吗？也许使用某种正则表达式是最好的选择，但是我真的不知道从哪里开始。

R version 3.5.0 (2018-04-23)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.5

Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libRlapack.dylib

locale:
[1] en_NZ.UTF-8/en_NZ.UTF-8/en_NZ.UTF-8/C/en_NZ.UTF-8/en_NZ.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] readxl_1.1.0    Rmisc_1.5       plyr_1.8.4      lattice_0.20-35 forcats_0.3.0   stringr_1.3.1   dplyr_0.7.5     purrr_0.2.5    
 [9] readr_1.1.1     tidyr_0.8.1     tibble_1.4.2    ggplot2_2.2.1   tidyverse_1.2.1

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.17     cellranger_1.1.0 pillar_1.2.3     compiler_3.5.0   bindr_0.1.1      tools_3.5.0      lubridate_1.7.4 
 [8] jsonlite_1.5     nlme_3.1-137     gtable_0.2.0     pkgconfig_2.0.1  rlang_0.2.1      psych_1.8.4      cli_1.0.0       
[15] rstudioapi_0.7   yaml_2.1.19      parallel_3.5.0   haven_1.1.1      bindrcpp_0.2.2   xml2_1.2.0       httr_1.3.1      
[22] hms_0.4.2        grid_3.5.0       tidyselect_0.2.4 glue_1.2.0       R6_2.2.2         foreign_0.8-70   modelr_0.1.2    
[29] reshape2_1.4.3   magrittr_1.5     scales_0.5.0     rvest_0.3.2      assertthat_0.2.0 mnormt_1.5-5     colorspace_1.3-2
[36] utf8_1.1.4       stringi_1.2.3    lazyeval_0.2.1   munsell_0.5.0    broom_0.4.4      crayon_1.3.4    
>

Answer 1

一种可能性是使用tidyr::separate

library(tidyverse)
df %>%
    separate(patient, into = c("ID1", "Days", "ID2"), sep = "-", extra = "merge", remove = F) %>%
    mutate(case = ifelse(as.numeric(Days) <= 14, "under14days", "over14days")) %>%
    select(-ID1, -ID2)
#  protein           patient Days value        case
#1  BOD1L2  RF0064_Case-9-d-    9 10.40 under14days
#2  PPFIA2 RF0064_Case-20-d-   20  7.83  over14days
#3   STAT4 RF0064_Case-11-d-   11 11.00 under14days
#4  TOM1L2 RF0064_Case-29-d-   29 13.00  over14days
#5  SH2D2A  RF0064_Case-2-d-    2  8.28 under14days
#6   TIGD4 RF0064_Case-49-d-   49  9.71  over14days

样本数据

df <-read.table(text =
    "    protein patient           value
1 BOD1L2  RF0064_Case-9-d-   10.4
2 PPFIA2  RF0064_Case-20-d-  7.83
3 STAT4   RF0064_Case-11-d-  11.0
4 TOM1L2  RF0064_Case-29-d-  13.0
5 SH2D2A  RF0064_Case-2-d-   8.28
6 TIGD4   RF0064_Case-49-d-  9.71  ", header = T, row.names = 1)

Answer 2

由于明确定义了patient的格式，因此在base-R中使用gsub的可能解决方案可以是提取days并检查范围为：

df$case <- ifelse(as.integer(gsub("RF0064_Case-(\\d+)-d-","\\1", df$patient)) <= 14,
                                                              "under14days", "over14days")

完全一样，OP可以将mutate中使用的代码修改为：

library(dplyr)
df <- df %>% 
mutate(case = ifelse(as.integer(gsub("RF0064_Case-(\\d+)-d-","\\1", patient)) <= 14,
                                                          "under14days", "over14days"))

df

#   protein           patient value        case
# 1  BOD1L2  RF0064_Case-9-d- 10.40 under14days
# 2  PPFIA2 RF0064_Case-20-d-  7.83  over14days
# 3   STAT4 RF0064_Case-11-d- 11.00 under14days
# 4  TOM1L2 RF0064_Case-29-d- 13.00  over14days
# 5  SH2D2A  RF0064_Case-2-d-  8.28 under14days
# 6   TIGD4 RF0064_Case-49-d-  9.71  over14days

数据：

df <- read.table(text = 
"protein patient           value 
1 BOD1L2  RF0064_Case-9-d-   10.4  
2 PPFIA2  RF0064_Case-20-d-  7.83 
3 STAT4   RF0064_Case-11-d-  11.0 
4 TOM1L2  RF0064_Case-29-d-  13.0  
5 SH2D2A  RF0064_Case-2-d-   8.28  
6 TIGD4   RF0064_Case-49-d-  9.71",
header = TRUE, stringsAsFactors = FALSE)

Answer 3

我们也可以使用正则表达式直接提取数字。 ?<=-在后面，用“-”标识位置。

library(tidyverse)

dat2 <- dat %>%
  mutate(Day = as.numeric(str_extract(patient, pattern = "(?<=-)[0-9]*"))) %>% 
  mutate(case = ifelse(Day <= 14,'under14days','over14days'))
dat2
#   protein           patient value Day        case
# 1  BOD1L2  RF0064_Case-9-d- 10.40   9 under14days
# 2  PPFIA2 RF0064_Case-20-d-  7.83  20  over14days
# 3   STAT4 RF0064_Case-11-d- 11.00  11 under14days
# 4  TOM1L2 RF0064_Case-29-d- 13.00  29  over14days
# 5  SH2D2A  RF0064_Case-2-d-  8.28   2 under14days
# 6   TIGD4 RF0064_Case-49-d-  9.71  49  over14days

数据

dat <- read.table(text = "    protein patient           value 
1 BOD1L2  'RF0064_Case-9-d-'   10.4  
2 PPFIA2  'RF0064_Case-20-d-'  7.83 
3 STAT4   'RF0064_Case-11-d-'  11.0 
4 TOM1L2  'RF0064_Case-29-d-'  13.0  
5 SH2D2A  'RF0064_Case-2-d-'   8.28  
6 TIGD4   'RF0064_Case-49-d-'  9.71",
                  header = TRUE, stringsAsFactors = FALSE)

是否有更简洁的方法来过滤dplyr中包含大于或小于数字的列？

3 个答案:

样本数据