从列中提取 Chr 编号

Question

我有一个数据框，其中有一列包含染色体详细信息（1 到 22）。我想创建另一个只有 Chr 数字的列

Answer 1

没有可重现的例子很难回答。使用 stringr 包和 regex 你可以实现你正在寻找的东西，但你需要知道所有的可能性。也许如果你想要的和烦人的信息之间只有下划线，你可以使用 str_split 和“_”作为模式参数来解决你的问题。请参考https://whosebug.com/help/how-to-ask

library(stringr)
df <- data.frame(chromosome = c("chr6_GL000253v2_alt", "chr6_GL000254v2_alt",
                                "chr6_GL000255v2_alt", "chr6_GL000256v2_alt", "chr4", "chr11",
                                "chr8", "chr12", "chr2", "chr12", "chr4", "chr6", "chr15", "chr4",
                                "chr2"))
df$chromosome_fixed=str_split(df$chromosome,"_",simplify = T)[,1]

Answer 2

请在下面找到软件包 data.table 的解决方案：

REPREX

代码

library(data.table)
library(stringr)

DT[, Chr_ID := lapply(.SD, str_extract,"(?<=^chr)\d+"), .SDcols = "chromosome"]

输出

DT
#>              chromosome Chr_ID
#>  1: chr6_GL000253v2_alt      6
#>  2: chr6_GL000254v2_alt      6
#>  3: chr6_GL000255v2_alt      6
#>  4: chr6_GL000256v2_alt      6
#>  5:                chr4      4
#>  6:               chr11     11
#>  7:                chr8      8
#>  8:               chr12     12
#>  9:                chr2      2
#> 10:               chr12     12
#> 11:                chr4      4
#> 12:                chr6      6
#> 13:               chr15     15
#> 14:                chr4      4
#> 15:                chr2      2

您的数据

DT <- data.table(chromosome = c("chr6_GL000253v2_alt", "chr6_GL000254v2_alt",
                 "chr6_GL000255v2_alt", "chr6_GL000256v2_alt", "chr4", "chr11",
                 "chr8", "chr12", "chr2", "chr12", "chr4", "chr6", "chr15", "chr4",
                 "chr2"))
DT
#>              chromosome
#>  1: chr6_GL000253v2_alt
#>  2: chr6_GL000254v2_alt
#>  3: chr6_GL000255v2_alt
#>  4: chr6_GL000256v2_alt
#>  5:                chr4
#>  6:               chr11
#>  7:                chr8
#>  8:               chr12
#>  9:                chr2
#> 10:               chr12
#> 11:                chr4
#> 12:                chr6
#> 13:               chr15
#> 14:                chr4
#> 15:                chr2

^{由 reprex package (v2.0.1)}

于 2021-10-12 创建

Answer 3

因为您没有共享数据。我创建了类似的列并将数字提取到名为 Number:

的新列中

#Populate a dummy table
df = pd.DataFrame(data=['chr6_GL','chr6_GL00','chr4','chr11','chr8','chr12'], columns=['Data'])
#Extract the numbers using regex and assign it to a new column called 'Number'
df['Numbers']=df['Data'].str.extract(r'chr([0-9]*)')

数据数量

从列中提取 Chr 编号

Extract the Chr number from the column

r

extract

chr

dataframe