User: Hernando Martínez
Hernando Martínez • 100
- Reputation:
- 100
- Status:
- New User
- Location:
- Last seen:
- 9 years, 5 months ago
- Joined:
- 9 years, 6 months ago
- Email:
- h**********@gmail.com
Posts by Hernando Martínez
<prev
• 10 results •
page 1 of 1 •
next >
1
vote
2
answers
693
views
2
answers
... Hi, I am trying to remove probes called A (absent) in all my
microarray
samples.
I am trying to get the p-values for the probes across all samples so I
can
use genefilter to create a mask and select the present genes. However,
I get
the following error:
> data<-ReadAffy()
> rawcalls<-ma ...
written 9.4 years ago by
Hernando Martínez • 100
• updated
9.4 years ago by
Iain Gallagher • 930
0
votes
3
answers
1.3k
views
5 follow
3
answers
... Hi, I need to remove genes with low expression values from a
expression
matrix. I would like to remove those with an average of expression
values
less than a certain cut-off. I was thinking in computing the average
for
each row, create a list with the gene names for which their average is
less
than ...
written 9.4 years ago by
Hernando Martínez • 100
• updated
9.4 years ago by
Robert Castelo • 2.3k
0
votes
2
answers
583
views
2
answers
... Hi list,
I am working with a network, in a table form like this:
Gene1 Gene5 0.76
Gene1 Gene79 0.89
Gene2 Gene8 0.97
...
Basically, each row represents two genes that interact, and their
pearson
correlation coefficient (from 0.7 to 1).
What I want to get is a plot r ...
written 9.4 years ago by
Hernando Martínez • 100
• updated
9.4 years ago by
Sean Davis ♦ 21k
0
votes
1
answer
499
views
1
answer
... Hi, I am trying to compare differentially expressed genes between
normal and
control in two data sets. The problem is that each data set uses a
different
array platform, and I want to work only with those genes that are
common to
both datasets. Is there any function in R to do that? Many thanks,
-- ...
written 9.5 years ago by
Hernando Martínez • 100
• updated
9.4 years ago by
Wolfgang Huber ♦ 13k
0
votes
1
answer
480
views
1
answer
... Hi, I am using SAM to identify differentially expressed genes in a set
of
microarrays, but I want to select a value of False Discovery Rate for
the
cut-off instead of using the delta. Does anyone know which parameter
to
introduce to do so? Or any function to get the delta for a specific
FDR?
Thank y ...
written 9.5 years ago by
Hernando Martínez • 100
• updated
9.5 years ago by
Holger Schwender • 900
0
votes
1
answer
702
views
1
answers
Comment:
C: R memory limit
... Thank you all very much. For the moment I can analyze the data using
R64.
However, I need to analyse as well a bigger matrix, to maybe I will
need the
other proposed solutions as well. Again, thanks, you have been very
helpful.
Hernando
2010/6/14 Kasper Daniel Hansen
> If you're on a mac and ...
written 9.5 years ago by
Hernando Martínez • 100
0
votes
1
answer
702
views
1
answers
Comment:
C: R memory limit
... sorry, I am trying to analize an expression microarray of nearly 350
samples. My R version is R 2.10.1 GUI 1.31 Leopard build 32-bit
(5537). How
do I load R in 64 bit? (maybe this is a trivial question for you but
it is
not for me, as I have no computer background).
Thank you very much again,
Herna ...
written 9.5 years ago by
Hernando Martínez • 100
0
votes
1
answer
702
views
1
answer
... Hi, I am working with large data, and when I try to read it into R
using
'ReadAffy', I get the following error message: "cannot allocate a
vector
size 712Mb". I have a MacBook Pro with 4Gb of memory. I have been
reading
some posts online, but I haven't found a clear solution. Maybe is a
limit in
R, ...
written 9.5 years ago by
Hernando Martínez • 100
• updated
9.5 years ago by
Benilton Carvalho • 4.3k
0
votes
1
answer
475
views
1
answers
... Thank you very much Sean, I have been working with function aggregate
and it
is exactly what I need. However, there is still a painful detail that
I
cannot get rid of. I hope you can help me too with this.
I have this text file:
A B C D
d1 2 23 2
d1 4 22 2
d1 5 24 2
d2 10 7 2
d2 20 8 3
d1 7 23 2
d3 ...
written 9.5 years ago by
Hernando Martínez • 100
0
votes
1
answer
475
views
1
answer
... Hello everyone, my name is Hernando, and I am new to R. I have a
little
problem that maybe you can help me with, as I have been looking
through the
packages with no success, and it shouldn't be very difficult to solve.
I have a text file containing a list of genes, with expression values
for
each al ...
written 9.5 years ago by
Hernando Martínez • 100
• updated
9.5 years ago by
Sean Davis ♦ 21k
Latest awards to Hernando Martínez
Popular Question
9.4 years ago,
created a question with more than 1,000 views.
For removal of genes with low expression values
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 16.09
Traffic: 407 users visited in the last hour