User: rna seq
rna seq • 90
- Reputation:
- 90
- Status:
- Trusted
- Location:
- Last seen:
- 3 years, 3 months ago
- Joined:
- 9 years, 5 months ago
- Email:
- r*********@gmail.com
0
votes
0
answers
846
views
0
answers
... I can do
cl<-makeCluster(14)
myfunc <- function(x=2){x+1}
> myfunc_argument <- 5
I get the same error if I don't load snow
clusterCall(cl, myfunc, myfunc_argument)
...
written 3.8 years ago by
rna seq • 90
0
votes
0
answers
846
views
0
answers
... Have you tried:
cl <- makePSOCKcluster(4)
Yes, same error
also, can you confirm, that the alignment worked for M1_L001_R1_001.fastq.gz6bcc701726.fastq, when using 3 nodes?
Yes alignment worked
Here is my session info:
> sessionInfo()
R version 3.2.3 (2015-12-10)
Platform: x86_64-pc-li ...
written 3.9 years ago by
rna seq • 90
• updated
3.9 years ago by
Martin Morgan ♦♦ 24k
0
votes
0
answers
846
views
0
answers
... Hello,
I am trying to run the Bioconductor QUASR package on multiple nodes. However, when I exceed 3 nodes in the command "cl<-makeCluster(4)", I get the following error:
Error in checkForRemoteErrors(val) :
one node produced an error: Error on ip-172-31-10-100 processing sample /home/ubuntu ...
written 3.9 years ago by
rna seq • 90
• updated
3.9 years ago by
Martin Morgan ♦♦ 24k
0
votes
1
answer
483
views
1
answers
... Thanks for the link Shirley this is exactly what I am looking for.
However, I need something that I can download to my local CPU.
On Fri, Jul 8, 2011 at 7:10 AM, shirley zhang
wrote:
> Dear TIA,
>
> SNAP web server might serve your purpose. SNAP allows either SNPid
or
> Genomic Lo ...
written 8.4 years ago by
rna seq • 90
0
votes
1
answer
483
views
1
answer
... Hello,
I am trying to determine the linkage association between a set of ~200
coordinates all within about 1Mb of eachother. I would like to create
a
function that I can enter two locations and have the R^2 value of the
linkage association between these two locations returned. I am
wondering if
any ...
written 8.4 years ago by
rna seq • 90
• updated
8.4 years ago by
shirley zhang • 1.0k
0
votes
0
answers
492
views
0
answers
... Hello,
Currently I am trying to load chr1 into a snp.matrix and from this
matrix, I
am tring to calculate the "ld" between two snps, when I enter
>pair.result.ld.snp(chr1[[1]], 748682, 748704)
I get the following errors. Any clues here would help. SESSION_
Information: samples = 174, snps = 3 ...
written 8.4 years ago by
rna seq • 90
0
votes
2
answers
744
views
2
answers
... Hello Bioconductor,
I am having some difficulties using the "snpMatrix" package. I
download the
following file using:
>chr1<-read.HapMap.data("
http://hapmap.ncbi.nlm.nih.gov/downloads/genotypes/latest_phaseII+III_
ncbi_b36/forward/non-
redundant/genotypes_chr1_CEU_r27_nr.b36_fwd.txt.gz
"
N ...
written 8.4 years ago by
rna seq • 90
• updated
8.4 years ago by
David Clayton • 20
0
votes
3
answers
759
views
3
answers
... Hello List,
I am trying to retrieve a sequence of ~1000 nts using the getseq()
function
from the BSgenomes package
I would like to replace the repeat masked regions with Ns
using something similar to the inject snps function from the
SNPlocs.Hsapiens.dbSNP package.
So far I can grab sequence fro ...
written 8.8 years ago by
rna seq • 90
• updated
8.8 years ago by
Hervé Pagès ♦♦ 14k
0
votes
3
answers
489
views
3
answers
... Hi Sean,
Thanks for getting back. There are two questions, the first I will
direct
towards the rpy list as you suggest. But the second is that as you say
these
packages are loaded using "library", but once I log off a session, the
packages that are loaded are lost once a session is over. I am tryin ...
written 8.8 years ago by
rna seq • 90
• updated
8.8 years ago by
Hervé Pagès ♦♦ 14k
0
votes
1
answer
358
views
1
answer
... Dear R,
Using Ubuntu 10.04 OS and R 2.10, I am running R through python using
"rpy".
I have noticed thatmy sessions are not saved and I am wondering if
there is
a way to do this. Also and more importantly. Is there a way to direct
R to
save downloaded packages in a specific file that will be recogn ...
written 8.8 years ago by
rna seq • 90
• updated
8.8 years ago by
Sean Davis ♦ 21k
Latest awards to rna seq
No awards yet. Soon to come :-)
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 16.09
Traffic: 292 users visited in the last hour