R 获取每行字符串的特定部分
我有一个数据,我想采取具体的一部分R 获取每行字符串的特定部分,r,regex,bioinformatics,R,Regex,Bioinformatics,我有一个数据,我想采取具体的一部分 DoseResponse_Curves/drCurve_AAATT.pdf DoseResponse_Curves/drCurve_AGMK1.pdf DoseResponse_Curves/drCurve_AGU.pdf DoseResponse_Curves/drCurve_ALH1L2.pdf DoseResponse_Curves/drCurve_ALKB1.pdf DoseResponse_Curves
DoseResponse_Curves/drCurve_AAATT.pdf
DoseResponse_Curves/drCurve_AGMK1.pdf
DoseResponse_Curves/drCurve_AGU.pdf
DoseResponse_Curves/drCurve_ALH1L2.pdf
DoseResponse_Curves/drCurve_ALKB1.pdf
DoseResponse_Curves/drCurve_AS2.pdf
DoseResponse_Curves/drCurve_ANK1.pdf
DoseResponse_Curves/drCurve_ANKRD54.pdf
我只想拿第二次之后和之前的东西。这意味着输出如下所示
AAATT
AGMK1
AGU
ALH1L2
ALKB1
AS2
ANK1
ANKRD54
注意:当我们处理基因名称时,它们可以包含字符,例如
c(“.”,“-”
您可以使用sub和正则表达式来实现这一点
Files = c(
'DoseResponse_Curves/drCurve_AAATT.pdf',
'DoseResponse_Curves/drCurve_AGMK1.pdf',
'DoseResponse_Curves/drCurve_AGU.pdf',
'DoseResponse_Curves/drCurve_ALH1L2.pdf',
'DoseResponse_Curves/drCurve_ALKB1.pdf',
'DoseResponse_Curves/drCurve_AS2.pdf',
'DoseResponse_Curves/drCurve_ANK1.pdf',
'DoseResponse_Curves/drCurve_ANKRD54.pdf')
sub(".*?_.*?_(.*?)\\..*", "\\1", Files)
[1] "AAATT" "AGMK1" "AGU" "ALH1L2" "ALKB1" "AS2" "ANK1"
[8] "ANKRD54"
有很多方法:
# Example data with gene names with dots and dashes
Files = c('DoseResponse_Curves/drCurve_ALKB1.pdf',
'DoseResponse_Curves/drCurve_BAC05914.1.pdf',
'DoseResponse_Curves/drCurve_ALDH1L1-AS1.pdf',
'DoseResponse_Curves/drCurve_AL953854.2-002.pdf')
# as parts of path are all same, we can sub with "":
gsub("DoseResponse_Curves/drCurve_|.pdf", "", Files)
# [1] "ALKB1" "BAC05914.1" "ALDH1L1-AS1" "AL953854.2-002"
# Or, as we are working with path and filenames maybe:
gsub("drCurve_", "", tools::file_path_sans_ext(basename(Files)))
# [1] "ALKB1" "BAC05914.1" "ALDH1L1-AS1" "AL953854.2-002"
# @G5W answer doesn't handle extra dots in gene names
sub(".*?_.*?_(.*?)\\..*", "\\1", Files)
# [1] "ALKB1" "BAC05914" "ALDH1L1-AS1" "AL953854"