I have a vector of values (about 8000 obs between 0 and 1). I want to
display a histogram as follows:
value of vector
( bw 0 and 1)|
|
|
|
|
I have two objects, one matrix and one vector.
I want to use my vector to subset certain values out of my matrix.
For example:
I want to tell R, to select out all rows in myMatrix into a new myMatrix2 IF
that corresponding row is less than a 0.5 in myVector.
So:
myMatrix = a matrix of 8000 by
like:
myMatrix2 - myMatrix[ myMatrix[,1] myVector, ]
You may find the subscripting section of chapter 1 of
S Poetry to be useful.
Patrick Burns
[EMAIL PROTECTED]
+44 (0)20 8525 0696
http://www.burns-stat.com
(home of S Poetry and A Guide for the Unwilling S User)
mark salsburg wrote:
I
I have a very large matrix. I would like to display the variance across each
row.
In other words, I want to output a vector containing the values of variance
across row.
When I use the function var(), it seems to give me the variability of each
column.
Any ideas??
[[alternative HTML
I am getting an error message, which I do not know the source to.
I have a matrix SAMPLES that has preexisting rownames that I would like to
change.
GENE_NAMES contains these rownames.
rownames(SAMPLES) = GENE_NAMES
Error in dimnames-.data.frame(`*tmp*`, value = list(list(V1 = c(3843, :
I am trying to find out if R can recognize specific criteria for removing
rows (i.e. a prexisting function)
I have a matrix myMatrix that is 12000 by 20
I would like to remove rows from myMatrix that have:
-999 across all columns
-999 across all columns but one
-999 across all columns but two
Dear group,
I would like to generate a 1000 random rows from a MATRIX with dimensions
12,000 by 20 (i.e. to generate a 1000 by 20 matrix of random rows)
Does the function sample() work for this???
thank you in advance
[[alternative HTML version deleted]]
I sent this to Bioconductor, but I think it is more of an R listserv
question, because of memory allocation trouble
I am having trouble getting the function heatmap() to work on the following
gene expression
dim(SAMPLES_log)
[1] 1262620
sample1
I'm having this error when I try to output out a gene expression data frame
Error in file(file, ifelse(append, a, w)) :
unable to open connection
In addition: Warning message:
cannot open file 'SAMPLES.txt'
when issuing the command:
write.table(SAMPLES, file = SAMPLES.txt)
How do I manipulate the read.table function to read in only the 2nd
column???
[[alternative HTML version deleted]]
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PLEASE do read the posting guide!
I have a data frame with the following dimensions 217 x 5
I want to create two data frames from the original.
1) One containing every tenth row of the original data frame
2) Other containing the rest of the rows.
How do I do this? I've tried subset() and calling the index.
thank you in
I have a vector of size 217 called A.
the values of A are not sorted and range from 0 to 1 (normalized)
I am having difficulty writing a program to create a new vector B where
if A's value is 0 A =0.333 then B is 0
if A's value is 0.333 A =0.666 then B is 1
if A's value is 0.666 A =1 then B is
Thank you for all the help.
Can someone refer me to a function that can help with the creation of
a concurrence matrix?
I have two asymmetric vectors (C is length 217 and D is length 16063)
that contain values of 0,1,2
I want to create a matrix E (where rows are D and columns are C) that
I cannot find in the literature a way to conduct the following t.test
on 2 objects, A and B
A B
col1 col2 col3 col1 col2 col3
Where col(i)'s name is identical in both A and B (they are names of tissues).
How do I test (t.test) if each
I cannot find in the literature a way to conduct the following t.test
on 2 objects, A and B
A B
col1 col2 col3 col1 col2 col3
Where col(i)'s name is identical in both A and B (they are names of tissues).
How do I test (t.test) if each
ok I created a matrix C with
A B CA1 B1C1
..
.
the columns contain the gene expression values..
I ran the following t.test:
apply(C, 1, function(x) t.test( x[1:3], x[4,6] )$p.value )
which outputs out 16063 pvalues
Can someone please refer me to a function or method that resolves this
structuring issue:
I have two matrices with identical colnames (89), but varying number
of observations:
matrix Amatrix B
217 x 89 16063 x 89
I want to creat one
Can someone please refer me to a function or method that resolves this
structuring issue:
I have two matrices with identical colnames (89), but varying number
of observations:
matrix Amatrix B
217 x 89 16063 x 89
I want to creat one
The latter, I want to replicate A enough times to have the same rows
as B. I realize that 16063 is not a mutliple 217, that doesn't really
matter for this problem
Assuming I change the colnames of one of them, how can I create a
matrix C that is the composite of the replicated A with B.
thank you
I have two files to compare, one is a regular txt file that I can read
in no prob.
The other is a .gct file (How do I read in this one?)
I tried a simple
read.table(data.gct, header = T)
How do you suggest reading in this file??
thank you.
__
a gct. file
thank you
On 7/19/05, Duncan Murdoch [EMAIL PROTECTED] wrote:
On 7/19/2005 12:10 PM, mark salsburg wrote:
I have two files to compare, one is a regular txt file that I can read
in no prob.
The other is a .gct file (How do I read in this one?)
I tried a simple
to read the data as tab delemited, but read in the 2nd
coloumn as one value based on the quotation marks..
thanks..
On 7/19/05, Marc Schwartz (via MN) [EMAIL PROTECTED] wrote:
On Tue, 2005-07-19 at 13:16 -0400, mark salsburg wrote:
ok so the gct file looks like this:
#1.2 (version number)
7283
I have the following data:
gene_name microarray expression
A 2323
B 1983
.
I have about 10,000 observations.
I would like to know if there is a way to
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