Hi,
You could also use "grep" to get the same result.
Try this:
dat2<-read.table(text="
Alu
1 AluJ
2 AluJ/F(R)AM
3 monomer
4 AluJ/FLAM
5 AluJ/FRAM
6 AluJ/monomer
7 AluJb
8 JBF
9 FRAM
",sep="",header=TRUE)
#grepl
dat3<-subset(dat2,grepl("Alu",dat2$Alu))
> dat3
Alu
1 AluJ
2 AluJ/F(R)AM
4 AluJ/FLAM
5 AluJ/FRAM
6 AluJ/monomer
7 AluJb
#using grep
dat4<-data.frame(subset(dat2$Alu,dat2$Alu %in% grep("^Alu", dat2$Alu,
value=TRUE),dat2))
colnames(dat4)<-"Alu"
> dat4
Alu
1 AluJ
2 AluJ/F(R)AM
3 AluJ/FLAM
4 AluJ/FRAM
5 AluJ/monomer
6 AluJb
#The difference is in the row numbers. The row numbers in "grepl" correspond
to the actual row numbers in the original file.
#You can change this to the correct order by,
row.names(dat3)<-1:nrow(dat3)
A.K.
----- Original Message -----
From: Joshua Budman <josh.bud...@gmail.com>
To: R-help@r-project.org
Cc:
Sent: Friday, June 22, 2012 12:14 PM
Subject: [R] Search list of elements for a specific pattern
Hi,
I have a list of mutations, called "mutList", of the form:
> head(mutList)
Alu
1 AluJ
2 AluJ/F(R)AM
3 AluJ/FLAM
4 AluJ/FRAM
5 AluJ/monomer
6 AluJb
It contains about 500 elements and not all of them contain the
sequence "Alu". I tried using this code:
Alu<-mutList[which(grep("Alu",mutList)==1)]
But that simply returned all of them elements in the list. Is there a
way to modify the list such that I have only the elements containing
"Alu" in the new list? Help would be appreciated!
Josh
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and provide commented, minimal, self-contained, reproducible code.
