Hello,
Inline.
Às 05:30 de 01/08/2020, Ana Marija escreveu:
do you think that this is useful output from Basics of R?
Actually, the answer will be yes, I do. Explanation follows.
load("paired_example.Rdata")
str(rawdata)
num [1:4482, 1:10] 46 4 3 48 1 4 0 60 0 12 ...
- attr(*, "dimnames")=List of 2
..$ : chr [1:4482] "gene1" "gene2" "gene3" "gene4" ...
..$ : chr [1:10] "a.cancer" "b.cancer" "c.cancer" "d.cancer" ..
This says that rawdata is a numeric matrix with 4482 rows and 10 columns.
And that an useful attribute, dimnames, is set.
I think this one is better:
dat<-local(get(load("paired_example.Rdata")))
head(dat)
a.cancer b.cancer c.cancer d.cancer e.cancer a.normal b.normal c.normal
gene1 46 4 33 5 8 61 5 42
gene2 4 0 2 1 5 24 1 30
gene3 3 4 4 2 1 3 0 0
gene4 48 2 10 0 6 9 4 3
gene5 1 5 2 3 6 1 0 3
gene6 4 0 0 1 1 4 0 7
This gives a better *visual* representation of the data, rawdata is an
object of class "matrix" and it now *looks* like a table. We are used to
seeing matrices printed like this so it's very easy to understand what
rawdata is about.
Note that this one only has 8 columns, did you process the data before
calling head()?
Anyway, why not run both str(rawdata) and head(rawdata)? Not only I
don't see a conflict, they are even complementary to one another.
As for the original question, Sarah did answer to it, when you load() a
.Rdata or .RData file the objects are created in a certain environment
and their names are returned, you don't need get(), it's redundant.
Hope this helps,
Rui Barradas
On Fri, Jul 31, 2020 at 11:05 PM Bert Gunter <bgunter.4...@gmail.com> wrote:
Sarah has explained all.
I agree with her about the need for tutorials also. This list cannot substitute
for such homework on your own.
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 Fri, Jul 31, 2020 at 7:55 PM Ana Marija <sokovic.anamar...@gmail.com> wrote:
Hi Bert,
it gives me this:
a=load("paired_example.Rdata")
str(a)
chr [1:3] "rawdata" "treatment" "patient"
I don't know how to extract "treatment" for example in a data frame.
I tried this but of no help.
b=a[[2]]
b
[1] "treatment"
str(treatment)
chr [1:10] "treat" "treat" "treat" "treat" "treat" "control" "control" ...
but this is not the format I need.
On Fri, Jul 31, 2020 at 9:18 PM Ana Marija <sokovic.anamar...@gmail.com> wrote:
Hello,
I have this file:
a=load("paired_example.Rdata")
a
[1] "rawdata" "treatment" "patient"
I can extract "rawdata" with:
dat<-local(get(load("paired_example.Rdata")))
Can you please advise how would I extract in data frame "treatment"
and "patient"?
Thanks
Ana
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