R help - Jul 2009 - Newbie in R: Reading .txt files and storing the 'numbers' in a vector

Hello everybody,

I'm a newbie in R and just went through an introduction class recently.

Here's my problem.
I have 2 text files (.txt) with plain numbers ('doubles' for those who  
know c++) ordered into 2 columns as below:

coordinate1		value1
coordinate2		value2
coordinate3		value3
...				...
coordinateN		valueN

I would like to write a small programme in which i would:
1. take all values of file 1 and store them in a vector
2. substract to those all values of file 2 (one by one) and store the  
result in a new vector
3. Create a sliding window of chosen size and calculate the  
mathematical average and store these averages in a new vector
4. Plot the different graphes with a bar plot

So I wrote a c++ script that does the first parts and writes the  
averages in a output.txt file (which I have up and running).  
Unfortunately, I seem to fail in reading these as numbers and putting  
them into a vector (in the R environment). I can read the file , but  
this is what I get:

 > z=scan(file = "/Users/NCCRGENETICS/Desktop/testRnumbers.txt",
what
= "double")
Read 19 items
 > z
  [1] "{\\rtf1\\ansi\\ansicpg1252\\cocoartf949\\cocoasubrtf430"
  [2] "{\\fonttbl\\f0\\fswiss\\fcharset0"
  [3] "Helvetica;}"
  [4] "{\\colortbl;\\red255\\green255\\blue255;}"
  [5] "\\paperw11900\\paperh16840\\margl1440\\margr1440\\vieww9000\ 
\viewh8400\\viewkind0"
  [6] "\\pard\\tx566\\tx1133\\tx1700\\tx2267\\tx2834\\tx3401\\tx3968\ 
\tx4535\\tx5102\\tx5669\\tx6236\\tx6803\\ql\\qnatural\\pardirnatural"
  [7] "\\f0\\fs24"
  [8] "\\cf0"
  [9] "13\\"             		// This is where my file "should"
start
reading the numbers I see in the window when I open it with textedit
[10] "27\\"
[11] "39\\"
[12] "48\\"
[13] "34\\"
[14] "17\\"
[15] "23\\"
[16] "45\\"
[17] "23\\"
[18] "4\\"
[19] "}"
 >

Thanks so much to any of you who could provoid a little help... I'm  
getting nuts.
Patrick

Have a look at ?read.table

HTH,

Thierry


------------------------------------------------------------------------
----
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
and Forest
Cel biometrie, methodologie en kwaliteitszorg / Section biometrics,
methodology and quality assurance
Gaverstraat 4
9500 Geraardsbergen
Belgium
tel. + 32 54/436 185
Thierry.Onkelinx at inbo.be
www.inbo.be

To call in the statistician after the experiment is done may be no more
than asking him to perform a post-mortem examination: he may be able to
say what the experiment died of.
~ Sir Ronald Aylmer Fisher

The plural of anecdote is not data.
~ Roger Brinner

The combination of some data and an aching desire for an answer does not
ensure that a reasonable answer can be extracted from a given body of
data.
~ John Tukey

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org]
Namens Patrick Schorderet
Verzonden: woensdag 29 juli 2009 10:29
Aan: r-help at r-project.org
Onderwerp: [R] Newbie in R: Reading .txt files and storing the 'numbers'
in avector


Hello everybody,

I'm a newbie in R and just went through an introduction class recently.

Here's my problem.
I have 2 text files (.txt) with plain numbers ('doubles' for those who
know c++) ordered into 2 columns as below:

coordinate1		value1
coordinate2		value2
coordinate3		value3
...				...
coordinateN		valueN

I would like to write a small programme in which i would:
1. take all values of file 1 and store them in a vector 2. substract to
those all values of file 2 (one by one) and store the result in a new
vector 3. Create a sliding window of chosen size and calculate the
mathematical average and store these averages in a new vector 4. Plot
the different graphes with a bar plot

So I wrote a c++ script that does the first parts and writes the
averages in a output.txt file (which I have up and running).  
Unfortunately, I seem to fail in reading these as numbers and putting
them into a vector (in the R environment). I can read the file , but
this is what I get:

 > z=scan(file = "/Users/NCCRGENETICS/Desktop/testRnumbers.txt",
what "double") Read 19 items  > z
  [1] "{\\rtf1\\ansi\\ansicpg1252\\cocoartf949\\cocoasubrtf430"
  [2] "{\\fonttbl\\f0\\fswiss\\fcharset0"
  [3] "Helvetica;}"
  [4] "{\\colortbl;\\red255\\green255\\blue255;}"
  [5] "\\paperw11900\\paperh16840\\margl1440\\margr1440\\vieww9000\
\viewh8400\\viewkind0"
  [6] "\\pard\\tx566\\tx1133\\tx1700\\tx2267\\tx2834\\tx3401\\tx3968\
\tx4535\\tx5102\\tx5669\\tx6236\\tx6803\\ql\\qnatural\\pardirnatural"
  [7] "\\f0\\fs24"
  [8] "\\cf0"
  [9] "13\\"             		// This is where my file
"should" start  
reading the numbers I see in the window when I open it with textedit
[10] "27\\"
[11] "39\\"
[12] "48\\"
[13] "34\\"
[14] "17\\"
[15] "23\\"
[16] "45\\"
[17] "23\\"
[18] "4\\"
[19] "}"
 >

Thanks so much to any of you who could provoid a little help... I'm
getting nuts.
Patrick

______________________________________________
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and provide commented, minimal, self-contained, reproducible code.

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On Wed, 29-Jul-2009 at 10:29AM +0200, Patrick Schorderet wrote:
>
> Hello everybody,
>
> I'm a newbie in R and just went through an introduction class recently.
Did you get the distinction between a vector and a dataframe? 

>
> Here's my problem.
> I have 2 text files (.txt) with plain numbers ('doubles' for those
who
> know c++) ordered into 2 columns as below:
>
> coordinate1		value1
> coordinate2		value2
> coordinate3		value3
> ...				...
> coordinateN		valueN
>
> I would like to write a small programme in which i would:
> 1. take all values of file 1 and store them in a vector
I'm fairly certain you need a dataframe, hence the recommendation to
look at read.table.


> 2. substract to those all values of file 2 (one by one) and store the  
> result in a new vector
> 3. Create a sliding window of chosen size and calculate the mathematical 
> average and store these averages in a new vector
> 4. Plot the different graphes with a bar plot
Those will follow simply once you have the first part working.

HTH

-- 
~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.   
   ___    Patrick Connolly   
 {~._.~}                   Great minds discuss ideas    
 _( Y )_  	         Average minds discuss events 
(:_~*~_:)                  Small minds discuss people  
 (_)-(_)  	                      ..... Eleanor Roosevelt
	  
~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.

I am also a newbie, but here are the few thing i do
eo=read.table(file="path where you have saved your text
file/xxx.txt",header=T, )   									#this will only read excelfiles saved
as *.csv file
attach(eo)																#attach the data
names(eo)

go to this website http://www.statmethods.net/stats
here is how to store numbers as vectors
a<-c(1,2,3,4,5,6,7)
here is how i means as vector
d<-aggregate(LMMP8,list(PlateID,Self_T1D),mean, na.rm=T)

I would suggest u to search for website for R tutorials
here are some good ones
go to this website http://www.statmethods.net/stats
http://cran.r-project.org/doc/contrib/Lemon-kickstart/kr_ttest.html
this one has all the codes you can change them according to your data
http://www3.imperial.ac.uk/pls/portallive/docs/1/1171930.TXT
http://www.mayin.org/ajayshah/KB/R/index.html

also download the book by verjani it would be a great help to you.



Patrick Schorderet wrote:
> 
> 
> Hello everybody,
> 
> I'm a newbie in R and just went through an introduction class recently.
> 
> Here's my problem.
> I have 2 text files (.txt) with plain numbers ('doubles' for those
who
> know c++) ordered into 2 columns as below:
> 
> coordinate1		value1
> coordinate2		value2
> coordinate3		value3
> ...				...
> coordinateN		valueN
> 
> I would like to write a small programme in which i would:
> 1. take all values of file 1 and store them in a vector
> 2. substract to those all values of file 2 (one by one) and store the  
> result in a new vector
> 3. Create a sliding window of chosen size and calculate the  
> mathematical average and store these averages in a new vector
> 4. Plot the different graphes with a bar plot
> 
> So I wrote a c++ script that does the first parts and writes the  
> averages in a output.txt file (which I have up and running).  
> Unfortunately, I seem to fail in reading these as numbers and putting  
> them into a vector (in the R environment). I can read the file , but  
> this is what I get:
> 
>  > z=scan(file =
"/Users/NCCRGENETICS/Desktop/testRnumbers.txt", what
> = "double")
> Read 19 items
>  > z
>   [1] "{\\rtf1\\ansi\\ansicpg1252\\cocoartf949\\cocoasubrtf430"
>   [2] "{\\fonttbl\\f0\\fswiss\\fcharset0"
>   [3] "Helvetica;}"
>   [4] "{\\colortbl;\\red255\\green255\\blue255;}"
>   [5] "\\paperw11900\\paperh16840\\margl1440\\margr1440\\vieww9000\ 
> \viewh8400\\viewkind0"
>   [6] "\\pard\\tx566\\tx1133\\tx1700\\tx2267\\tx2834\\tx3401\\tx3968\ 
> \tx4535\\tx5102\\tx5669\\tx6236\\tx6803\\ql\\qnatural\\pardirnatural"
>   [7] "\\f0\\fs24"
>   [8] "\\cf0"
>   [9] "13\\"             		// This is where my file
"should" start
> reading the numbers I see in the window when I open it with textedit
> [10] "27\\"
> [11] "39\\"
> [12] "48\\"
> [13] "34\\"
> [14] "17\\"
> [15] "23\\"
> [16] "45\\"
> [17] "23\\"
> [18] "4\\"
> [19] "}"
>  >
> 
> Thanks so much to any of you who could provoid a little help... I'm  
> getting nuts.
> Patrick
> 
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
> 
> 
-- 
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