重新编码 R 中的现有列

Question

我有包含以下两列的数据框

      Tumor_Barcode    SEX
     MEL-JWCI-WGS-1   Male
     MEL-JWCI-WGS-11   Male
     MEL-JWCI-WGS-12 Female
     MEL-JWCI-WGS-13   Male

我想将第 Tumor_Barcode 列重新编码为第三列 Sample_ID，输出应如下所示。

     Tumor_Barcode   Sex   Sample_ID
     MEL-JWCI-WGS-1   Male  ME001
     MEL-JWCI-WGS-11   Male ME011
     MEL-JWCI-WGS-12 Female ME012
     MEL-JWCI-WGS-13   Male ME013

我能用 R 做吗？

数据：

Tumor_Barcode<-c(" MEL-JWCI-WGS-1","MEL-JWCI-WGS-11","MEL-JWCI-WGS-12","MEL-JWCI-WGS-13")
Sex<-c("Male", "Male", "Female", "Male")
DF1<-data.frame(Tumor_Barcode,Sex)

Answer 1

可能的解决方案：

library(tidyverse)

DF1 %>% 
  mutate(Sample_ID = str_c("ME", str_extract(Tumor_Barcode, "\d+$") %>% 
         str_pad(3, pad = "0")))

#>     Tumor_Barcode    Sex Sample_ID
#> 1  MEL-JWCI-WGS-1   Male     ME001
#> 2 MEL-JWCI-WGS-11   Male     ME011
#> 3 MEL-JWCI-WGS-12 Female     ME012
#> 4 MEL-JWCI-WGS-13   Male     ME013

Answer 2

这是基本的 R 方式。

Tumor_Barcode <- c(" MEL-JWCI-WGS-1","MEL-JWCI-WGS-11","MEL-JWCI-WGS-12","MEL-JWCI-WGS-13")
Sex <- c("Male", "Male", "Female", "Male")
DF1 <- data.frame(Tumor_Barcode,Sex)

num <- as.integer(sub("[^[:digit:]]+", "", DF1$Tumor_Barcode))
DF1$Sample_ID <- sprintf("ME%03d", num)
rm(num)    # tidy up
DF1
#>     Tumor_Barcode    Sex Sample_ID
#> 1  MEL-JWCI-WGS-1   Male     ME001
#> 2 MEL-JWCI-WGS-11   Male     ME011
#> 3 MEL-JWCI-WGS-12 Female     ME012
#> 4 MEL-JWCI-WGS-13   Male     ME013

^{由 reprex package (v2.0.1)}

创建于 2022-03-11

创建新列的两行代码可以变成one-liner:

DF1$Sample_ID <- sprintf("ME%03d", as.integer(sub("[^[:digit:]]+", "", DF1$Tumor_Barcode)))
DF1
#>     Tumor_Barcode    Sex Sample_ID
#> 1  MEL-JWCI-WGS-1   Male     ME001
#> 2 MEL-JWCI-WGS-11   Male     ME011
#> 3 MEL-JWCI-WGS-12 Female     ME012
#> 4 MEL-JWCI-WGS-13   Male     ME013

^{由 reprex package (v2.0.1)}

创建于 2022-03-11

Answer 3

我们可以用base R

DF1$Sample_ID <- with(DF1, sprintf('%s%03d', 
   substr(trimws(Tumor_Barcode), 1, 2), 
      as.integer(trimws(Tumor_Barcode, whitespace = "\D+"))))

-输出

> DF1
    Tumor_Barcode    Sex Sample_ID
1  MEL-JWCI-WGS-1   Male     ME001
2 MEL-JWCI-WGS-11   Male     ME011
3 MEL-JWCI-WGS-12 Female     ME012
4 MEL-JWCI-WGS-13   Male     ME013

重新编码 R 中的现有列

Recoding existing column in R

r

dataframe

recode