This does not make a whole lot of sense, since read.csv is a wrapper
around read.table:
> read.csv
function (file, header = TRUE, sep = ",", quote = "\"", dec = ".",
fill = TRUE, comment.char = "", ...)
read.table(file = file, header = header, sep = sep, quote = quote,
dec = dec, fill = fill, comment.char = comment.char, ...)
<environment: namespace:utils>
Notice the fill = TRUE argument, that is sometimes nice and sometimes
catastrophic, depending on what file you are reading.
Kasper
On Jul 20, 2008, at 1:55 PM, Lynn Amon wrote:
> Hi Carol,
> I've had trouble with read.table also. It doesn't always read all
> the rows and columns. I recommend using read.csv(sep="\t") instead.
> Lynn Amon
>
>
> Martin Morgan wrote:
>> carol white <wht_crl at yahoo.com> writes:
>>
>>
>>> t
>>> = read.table ("my_file", check.names = FALSE, header =
>>> T) gives the same result, modifying duplicate
>>> names. Carol
>>
>> what does sessionInfo() say (i.e., is your R current; is this
>> something special to your OS or LOCALE)? Have you done this in a
>> 'clean' R session, e.g., starting R from the shell with R --vanilla ?
>> And for what it's worth
>>
>>
>>> read.table("~/tmp/tmp.txt", header=TRUE, check.names=FALSE)
>>>
>> AM2 AM2 AM2 FAL
>> 1 2 3 4 5
>> 2 1 -1 -3 -2
>>
>>
>>> sessionInfo()
>>>
>> R version 2.7.1 Patched (2008-07-03 r46033) x86_64-unknown-linux-gnu
>> locale:
>> LC_CTYPE
>> =
>> en_US
>> .UTF
>> -8
>> ;LC_NUMERIC
>> =
>> C
>> ;LC_TIME
>> =
>> en_US
>> .UTF
>> -8
>> ;LC_COLLATE
>> =
>> en_US
>> .UTF
>> -8
>> ;LC_MONETARY
>> =
>> C
>> ;LC_MESSAGES
>> =
>> en_US
>> .UTF
>> -8
>> ;LC_PAPER
>> =
>> en_US
>> .UTF
>> -8
>> ;LC_NAME
>> =
>> C
>> ;LC_ADDRESS
>> =C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
>>
>> attached base packages:
>> [1] stats graphics utils datasets grDevices methods
>> base Martin
>>
>>
>>> --- On Sat, 7/19/08, Martin Morgan <mtmorgan at fhcrc.org>
>>> wrote
>>> : From
>>> : Martin Morgan <mtmorgan at fhcrc.org> Subject:
>>> Re: [BioC] problem with read.table To: wht_crl at yahoo.com
>>> Cc: bioconductor at stat.math.ethz.ch Date:
>>> Saturday, July 19, 2008, 1:52
>>> PM
>>> Hi
>>>
>>> Carol
>>> ... Carol
>>> white <wht_crl at yahoo.com>
>>> writes
>>> : >
>>>
>>> Hi
>>> , >
>>> Although I set check.names to FALSE in read.table, the duplicate
>>> names
>>> get
>>> modified
>>> . What should be done in this
>>> case
>>> ? >
>>> >
>>> the text file to be read by
>>> read
>>> .table
>>> >
>>> >
>>> AM2 AM2 AM2
>>> FAL
>>> >
>>> 2
>>> 3
>>> 4
>>> 5
>>> >
>>> 1 -1 -3
>>> -2
>>> >
>>> >
>>> t = read.table ("my_file", check.names = F, header =
>>> T
>>> ) Maybe
>>> spell out TRUE, FALSE (reserved words, cannot be assigned to)
>>> to
>>> avoid
>>> getting the value of variables T, F from your
>>> environment
>>> ?? Martin
>>> >
>>> >
>>> t
>>> >
>>> AM2 AM2.1 AM2.2
>>> FAL
>>> >
>>> >
>>> 2 3
>>> 4
>>> 5
>>> >
>>> >
>>> 1 -1 -3
>>> -2
>>> >
>>> >
>>> instead
>>> of
>>> >
>>> >
>>> AM2 AM2 AM2
>>> FAL
>>> >
>>> >
>>> >
>>> 2 3
>>> 4
>>> 5
>>> >
>>> >
>>> >
>>> 1 -1 -3
>>> -2
>>> >
>>> >
>>> >
>>>
>>> Best
>>> , >
>>>
>>> carol
>>> >
>>> >
>>> >
>>> >
>>> >
>>> [[alternative HTML version
>>> deleted
>>> ]] >
>>> >
>>>
>>> _______________________________________________
>>> >
>>> Bioconductor mailing
>>> list
>>> >
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>>> .math
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>>> .ch
>>> >
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>>> >
>>> Search the
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>>> gmane
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>>> -- Martin
>>>
>>> Morgan
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>>> Center
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>>> : (206) 667-2793
>>>
>>>
>>
>>
>
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