Re: [R] Issue with results from 'summary' function in R

2015-09-19 Thread Praveen Surendran 
Hi Thierry,

Thank you for the response. I should have looked at the help page.

Kind Regards,
Praveen.

On 18/09/2015 15:51, "Thierry Onkelinx"  wrote:

>This is described in ?summary
>
>> x <- 22072
>> getOption("digits")
>[1] 7
>> summary(x)
>   Min. 1st Qu.  MedianMean 3rd Qu.Max.
>  22070   22070   22070   22070   22070   22070
>> options(digits = 10)
>> summary(x)
>   Min. 1st Qu.  MedianMean 3rd Qu.Max.
>  22072   22072   22072   22072   22072   22072
>ir. Thierry Onkelinx
>Instituut voor natuur- en bosonderzoek / Research Institute for Nature
>and Forest
>team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
>Kliniekstraat 25
>1070 Anderlecht
>Belgium
>
>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
>
>
>2015-09-18 14:08 GMT+02:00 Praveen Surendran :
>> Hi all,
>>
>> Attached table (that contains summary for a genetic association study)
>>was read using the command:
>>
>> test <- read.table('testDat.txt',header=FALSE,stringsAsFactors=FALSE)
>>
>> Results from the summary of the attached table is provided below:
>>
>>> summary(test$V5)
>>Min. 1st Qu.  MedianMean 3rd Qu.Max.
>>   22070   22070   22070   22070   22070   22070
>>
>> As we can see column 5 of this table contains only one value - 22072
>> I am confused as to why I am getting a value 22070 in the summary of
>>this column.
>>
>> I tested this using versions of R including - R version 3.2.1
>>(2015-06-18) -- "World-Famous Astronaut"
>>
>> Thank you for looking at this issue.
>> Kind Regards,
>>
>> Praveen.
>>
>>
>>
>>
>> __
>> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> 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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[R] Issue with results from 'summary' function in R

2015-09-18 Thread Praveen Surendran 
Hi all,

Attached table (that contains summary for a genetic association study) was read 
using the command:

test <- read.table('testDat.txt',header=FALSE,stringsAsFactors=FALSE)

Results from the summary of the attached table is provided below:

> summary(test$V5)
   Min. 1st Qu.  MedianMean 3rd Qu.Max.
  22070   22070   22070   22070   22070   22070

As we can see column 5 of this table contains only one value - 22072
I am confused as to why I am getting a value 22070 in the summary of this 
column.

I tested this using versions of R including - R version 3.2.1 (2015-06-18) -- 
"World-Famous Astronaut"

Thank you for looking at this issue.
Kind Regards,

Praveen.



1   762320  C   T   22072   0.0169445   0.0169445   748 
1   0.00350047  21324   748 0   0.38843753.9888 
0.000133264 0.994259
1   785989  T   C   22072   0.7928370.79283722182   
0.6337890.0166803   647 45028840-84.0255137.518 
-0.00444316 0.54119
1   865545  G   A   22072   0.00021447  0.00021447  6   
0.6337441   13982   6   0   11.2623 4.91838 0.465569
0.0220305
1   865584  G   A   22072   9.06125e-05 9.06125e-05 4   
1   1   22068   4   0   0.82775 4.01634 0.0513144   0.836716
1   865628  G   A   22072   0.00236503  0.00236503  58  
0.451   12204   58  0   -0.662004   15.2589 
-0.00284324 0.965395
1   865662  G   A   22072   0.00493838  0.00493838  218 
1   1   21854   218 0   -97.186229.5061 -0.11163
0.000988553
__
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Re: [R] Issue with results from 'summary' function in R

2015-09-18 Thread Thierry Onkelinx 
This is described in ?summary

> x <- 22072
> getOption("digits")
[1] 7
> summary(x)
   Min. 1st Qu.  MedianMean 3rd Qu.Max.
  22070   22070   22070   22070   22070   22070
> options(digits = 10)
> summary(x)
   Min. 1st Qu.  MedianMean 3rd Qu.Max.
  22072   22072   22072   22072   22072   22072
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
and Forest
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
Kliniekstraat 25
1070 Anderlecht
Belgium

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


2015-09-18 14:08 GMT+02:00 Praveen Surendran :
> Hi all,
>
> Attached table (that contains summary for a genetic association study) was 
> read using the command:
>
> test <- read.table('testDat.txt',header=FALSE,stringsAsFactors=FALSE)
>
> Results from the summary of the attached table is provided below:
>
>> summary(test$V5)
>Min. 1st Qu.  MedianMean 3rd Qu.Max.
>   22070   22070   22070   22070   22070   22070
>
> As we can see column 5 of this table contains only one value - 22072
> I am confused as to why I am getting a value 22070 in the summary of this 
> column.
>
> I tested this using versions of R including - R version 3.2.1 (2015-06-18) -- 
> "World-Famous Astronaut"
>
> Thank you for looking at this issue.
> Kind Regards,
>
> Praveen.
>
>
>
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> 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.

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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.

Re: [R] Issue with results from 'summary' function in R

2015-09-18 Thread Keith Jewell 

On 18/09/2015 13:08, Praveen Surendran wrote:

Hi all,

Attached table (that contains summary for a genetic association study) was read 
using the command:

test <- read.table('testDat.txt',header=FALSE,stringsAsFactors=FALSE)

Results from the summary of the attached table is provided below:


summary(test$V5)

Min. 1st Qu.  MedianMean 3rd Qu.Max.
   22070   22070   22070   22070   22070   22070

As we can see column 5 of this table contains only one value - 22072
I am confused as to why I am getting a value 22070 in the summary of this 
column.

I tested this using versions of R including - R version 3.2.1 (2015-06-18) -- 
"World-Famous Astronaut"

Thank you for looking at this issue.
Kind Regards,

Praveen.


> summary(22072, digits=5)
   Min. 1st Qu.  MedianMean 3rd Qu.Max.
  22072   22072   22072   22072   22072   22072

__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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.