On Fri, 21 Dec 2018 16:37:54 +0100
Giuseppe Cillis wrote:
> Dear all,
> I am a beginner with R (and also with the statistics) for which I
> hope to be clear.
> I should do this non-parametric test on data I extracted from maps.
> In practice I have a column that represents the landscape Dynamics
Is the file being saved as .xls, .xlsx, .csv, .tsv, or .txt?
On Wed, Dec 26, 2018 at 10:14 PM Spencer Brackett <
spbracket...@saintjosephhs.com> wrote:
> Follow up,
>
> Would read.txt also work, as I am certain that I have both datasets in
> .txt files? As to a previous users question concern th
Follow up,
Would read.txt also work, as I am certain that I have both datasets in .txt
files? As to a previous users question concern the .csv nature of the
supposed excel file, I am uncertain as to how this was translated as such.
The file is most certainly in excel.
On Thu, Dec 27, 2018 at 12:
Caitlin,
I tried your command in both RGui and RStudio but both came up as errors.
I believe I made a mistake somewhere I labeling/downloading the files,
which is the source of the confusion in R. I will re-examine the files
saved on my desktop to determine the error. Regardless, would it be bet
Does this help Spencer? The read.delim() function assumes a tab character by
default, but I specifically included it using the read.csv function. The
downloaded file is NOT an Excel file so this should help.
GBM_protein_expression <- read.csv("C:/Users/Spencer/Desktop/GBM
protein_expression.tsv
this is wrong because the file is a csv file. read_excel is designed
for xls files.
GBM_protein_expression <- read_excel("C:/Users/Spencer/Desktop/GBM
protein_expression.csv")
How did you get a csv? it downloads as tsv.
the statement you should use is in base, no library() statement is needed.
Sorry, my mistake.
So I could still use read.table and should I try using a .txt version of
the file to avoid the silent changes you described?
Also, when I tried to simply this process by downloading the dataset onto
RStudio opposed to R (Gui) I received the following...
library(readxl)
> GBM_p
No. This is a limitation of CMD that R is not designed to work around.
On December 26, 2018 8:47:44 AM PST, RK wrote:
>Hi,
>
>When I run R.exe (or Rterm.exe) from cmd.exe and enter in a long input
>line, e.g.
>
>print("123456789012345678901234567890123456789012345678901234567890123456789012345678
Please always reply-all to keep the list involved.
If you used Save As to change the data format to Excel AND the file extension
to xlsx, then yes, you should be able to read with readxl. I don't recommend
it, though... Excel often changes data silently and in irregularly located
places in your
CSV and TSV are not Excel files. Yes, I know Excel will open them, but that
does not make them Excel files.
Read a TSV file with read.table or read.csv, setting the sep argument to "\t".
On December 26, 2018 7:26:35 PM PST, Spencer Brackett
wrote:
>I tried importing the file without preview an
I tried importing the file without preview and recieved the following
library(readxl)
> GBM_protein_expression <- read_excel("C:/Users/Spencer/Desktop/GBM
protein_expression.csv")
Error: Can't establish that the input is either xls or xlsx.
> View(GBM_protein_expression)
Error in View : object
Hi,
When I run R.exe (or Rterm.exe) from cmd.exe and enter in a long input
line, e.g.
print("12345678901234567890123456789012345678901234567890123456789012345678901234567890")
the visible portion of the input is truncated to:
print("12345678901234567890123456789012345678901234567890123456789012
Hello again,
I worked on directly downloading the file into R as was suggested, but have
thus far been unsuccessful. This is what I generated on my second
attempt...
GBM protein_expression<-(file.choose(), header=TRUE, sep="\t")
Error: unexpected symbol in "GBM protein_expression"
> GBM
protein
Mr. Heiberger,
Thank you for the insight! I will try out suggestion.
Best,
Spencer Brackett
On Wed, Dec 26, 2018 at 6:34 PM Richard M. Heiberger wrote:
> I looked at the first file. It gives an option to download as TSV
> (tab separated values).
> That is the same as CSV except with tabs in
I looked at the first file. It gives an option to download as TSV
(tab separated values).
That is the same as CSV except with tabs instead of commas.
You do not need any external software to read it. Read the downloaded
file directly into R.
read.delim looks as if it would work directly on the d
Inline.
-- Bert
Bert Gunter
"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On Wed, Dec 26, 2018 at 3:04 PM Spencer Brackett <
spbracket...@saintjosephhs.com> wrote:
> Good
Good evening,
I am attempting to anaylze the protein expression data contained within
these two ICGC, TCGA datasets (one for GBM and the other for LGG)
*File for GBM protein expression*:
https://dcc.icgc.org/search?filters=%7B%22donor%22:%7B%22projectId%22:%7B%22is%22:%5B%22GBM-US%22%5D%7D,%22av
Forwarding to the full R-help list.
The protocol is for everyone to see the full set of questions and answers.
This allows for:
1. more people to contribute, which generally improves the quality of
the answer
2. people with similar questions can find this thread via search and
see the full
In your printing out of z your copy-paste effort seems to have missed
columns 1-7 of rows 1-4.
It would be better if you would provide the data by using the dput()
function, as in:
dput(y)
dput(z)
then copy-paste the output from that.
On Wed, Dec 26, 2018 at 1:50 AM M P wrote:
> Actually, let'
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