[R] Help
arun
smartpink111 at yahoo.com
Sun Apr 28 06:47:46 CEST 2013
Hi Atem,
I was able to read the file and removed those suffix letters. The file had a lot of formatting issues. I don't know about the formatting in your other files. Also, there were lines that differ in the number of elements.
If it is similar to the one you send, you can try this:
con<- file("dt306A009.txt")
Lines1<- readLines(con)
close(con)
Lines2<- Lines1[-1]
length(Lines2)
#[1] 1140
library(stringr)
Lines3<-str_split(Lines2,"-9999.99M")
Lines4<- str_trim(unlist(lapply(Lines3,function(x){x[x==""]<-NA;paste(x,collapse=" ")})))
Lines5<-gsub("(\\d+)[A-Za-z]","\\1",Lines4)
res<-read.table(text=Lines5,sep="",header=FALSE,fill=TRUE)
head(res)
# V1 V2 V3 V4 V5 V6 V7 V8 V9 V10 V11 V12 V13 V14 V15 V16 V17 V18 V19 V20
#1 1917 1 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#2 1917 2 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#3 1917 3 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#4 1917 4 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#5 1917 5 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#6 1917 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
# V21 V22 V23 V24 V25 V26 V27 V28 V29 V30 V31 V32 V33
#1 NA NA NA NA NA NA NA NA NA NA NA NA NA
#2 NA NA NA NA NA NA NA NA NA NA NA NA NA
#3 NA NA NA NA NA NA NA NA NA NA NA NA NA
#4 NA NA NA NA NA NA NA NA NA NA NA NA NA
#5 NA NA NA NA NA NA NA NA NA NA NA NA NA
#6 14.47 2.3 3.34 1.05 0 0 0 0 0 0 1.57 0 NA
temp<- list.files(pattern="*.txt")
#Reading multiple files. In this case, I am reading the same file saved with different names.
temp
#[1] "dt306A009.txt" "dt306A010.txt"
res<-lapply(temp,function(x) {con<- file(x); Lines1<- readLines(con); close(con);Lines2<-Lines1[-1]; Lines3<- str_split(Lines2,"-9999.99M");Lines4<- str_trim(unlist(lapply(Lines3,function(x){x[x==""]<-NA;paste(x,collapse=" ")})));Lines5<- gsub("(\\d+)[A-Za-z]","\\1",Lines4);res<- read.table(text=Lines5,sep="",header=FALSE,fill=TRUE) })
lapply(res,head,2)
#[[1]]
# V1 V2 V3 V4 V5 V6 V7 V8 V9 V10 V11 V12 V13 V14 V15 V16 V17 V18 V19 V20 V21
#1 1917 1 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#2 1917 2 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
# V22 V23 V24 V25 V26 V27 V28 V29 V30 V31 V32 V33
#1 NA NA NA NA NA NA NA NA NA NA NA NA
#2 NA NA NA NA NA NA NA NA NA NA NA NA
#
#[[2]]
# V1 V2 V3 V4 V5 V6 V7 V8 V9 V10 V11 V12 V13 V14 V15 V16 V17 V18 V19 V20 V21
#1 1917 1 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
#2 1917 2 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
# V22 V23 V24 V25 V26 V27 V28 V29 V30 V31 V32 V33
#1 NA NA NA NA NA NA NA NA NA NA NA NA
#2 NA NA NA NA NA NA NA NA NA NA NA NA
A.K.
________________________________
From: Zilefac Elvis <zilefacelvis at yahoo.com>
To: arun <smartpink111 at yahoo.com>
Sent: Saturday, April 27, 2013 11:14 PM
Subject: Re: Re: [R] Help
Hi A.K,
Attached are example files. I have 110 of such and would like to perform the analysis as described before. I would find T, F, Y, A, C, etc and delete them. The letters are affixed to values in the data just to communicate an idea. As before, find all -9999.99M and replace with NA.
Thanks so much.
Atem.
________________________________
From: arun <smartpink111 at yahoo.com>
To: "zilefacelvis at yahoo.com" <zilefacelvis at yahoo.com>
Cc: R help <r-help at r-project.org>
Sent: Saturday, April 27, 2013 7:53 PM
Subject: Re: Re: [R] Help
Hi,
If you wanted to delete "T", "C","A", "F" and "Y" and replace "-999.99M" with NA, it is possible, but the result would be stored in a list if
the number of elements deleted from each of the columns are different. As you didn't provide any reproducible example, I don't know whether equal number of elements are replaced from each columns or not..
set.seed(28)
myfiles<- lapply(1:5,function(i) as.data.frame(matrix(sample(c(LETTERS,"-999.99M"),40*i,replace=TRUE),ncol=(40*i)/8),stringsAsFactors=FALSE))
res<-lapply(myfiles,function(x){x[x=="-999.99M"]<-NA;lapply(x,function(y) y[!y%in%c("T","C","A","F","Y")])})
res[[1]]
#$V1
#[1] "M" "X" "U" "X"
#
#$V2
#[1] "P" "Z" "S" "R" "Q" "W" "N" "I"
#
#$V3
#[1] "K" "S" NA "M" "G" "G" "Z"
#
#$V4
#[1] "O" "M" "G" "G" "B" "X" "M"
#
#$V5
#[1] "I" "X" "P" "K" "R"
"K"
A.K.
________________________________
From: "zilefacelvis at yahoo.com" <zilefacelvis at yahoo.com>
To: arun <smartpink111 at yahoo.com>
Cc: R help <r-help at r-project.org>
Sent: Saturday, April 27, 2013 9:41 PM
Subject: Re: Re: [R] Help
Hi A.K,
Thanks for this great help. I wish to find -999.99M and replace with NA. All others like T, A, F etc should be deleted from the files.
Thanks for much.
------ Original Message ------
From : arun
>To : Zilefac Elvis;
>Cc : R help;
>Sent :
27-04-2013 16:29
>Subject : Re: [R] Help
>
>HI, "Find 'T','C','A','F' and 'Y', delete them from all the 110 files"
I assume that you meant to replace it with NA. set.seed(28)
myfiles<- lapply(1:5,function(i) as.data.frame(matrix(sample(c(LETTERS,"-999.99M"),40*i,replace=TRUE),ncol=(40*i)/8),stringsAsFactors=FALSE)) myfiles[[1]]
# V1 V2 V3 V4 V5
#1 A P K O Y
#2 C Z S M Y
#3 M S -999.99M G I
#4 X R M G X
#5 C Q G A P
#6 U W G B K
#7 A N Z X
R
#8 X I F M K res<-lapply(myfiles,function(x) {x1<-unlist(x); x1[x1%in% c("-999.99M","T","C","A","F","Y")]<-NA;as.data.frame(matrix(x1,ncol=ncol(x)),stringsAsFactors=FALSE)}) res[[1]] # V1 V2 V3 V4 V5
#1 P K O
#2 Z S M
#3 M S G I
#4 X R M G X
#5 Q G P
#6 U W G B K
#7 N Z X R
#8 X I
M K lapply(seq_along(res),function(i) write.table(res[[i]],paste0("file",i,".txt"),row.names=FALSE,quote=FALSE))
A.K. ----- Original Message -----
From: Zilefac Elvis
To: "r-help at r-project.org"
Cc:
Sent: Saturday, April 27, 2013 11:20 AM
Subject: [R] Help Hello, I have a question and need your help urgently. I am new to R but want to learn it. I have several files in a folder which I have imported to R using :
temp = list.files(pattern="*.txt")
>myfiles = lapply(temp, read.delim)
The resulting files are on the workspace stored as List[110]. So they are 110 files in the list. Each file has several different columns and rows.
My question: I would like to find and replace -999.99M with NA; Find 'T','C','A','F' and 'Y', delete them from all the 110 files.
Then, I want to write.table all
the corrected files back to a folder on my computer.
Thanks for your help.
Atem. ________________________________
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