User: rna seq

gravatar for rna seq
rna seq90
Reputation:
90
Status:
Trusted
Location:
Last seen:
3 years, 3 months ago
Joined:
9 years, 5 months ago
Email:
r*********@gmail.com

Posts by rna seq

<prev • 22 results • page 2 of 3 • next >
0
votes
0
answers
846
views
0
answers
Comment: C: problem using >3 clusters with Quasr
... 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 seq90
0
votes
0
answers
846
views
0
answers
Comment: C: problem using >3 clusters with Quasr
... 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 seq90 • updated 3.9 years ago by Martin Morgan ♦♦ 24k
0
votes
0
answers
846
views
0
answers
problem using >3 clusters with Quasr
... 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 ...
quasr parallel written 3.9 years ago by rna seq90 • updated 3.9 years ago by Martin Morgan ♦♦ 24k
0
votes
1
answer
483
views
1
answers
Comment: C: determining linkage between two genomic coordinates
... 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 seq90
0
votes
1
answer
483
views
1
answer
determining linkage between two genomic coordinates
... 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 seq90 • updated 8.4 years ago by shirley zhang1.0k
0
votes
0
answers
492
views
0
answers
Segmentation fault using pair.result.ld.snp in snpMatrix package
... 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 ...
snp convert written 8.4 years ago by rna seq90
0
votes
2
answers
744
views
2
answers
snpMatrix trouble with read.HapMap.data() and ld.snp()
... 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 ...
snp convert written 8.4 years ago by rna seq90 • updated 8.4 years ago by David Clayton20
0
votes
3
answers
759
views
3
answers
insert Ns for repeat masked regions
... 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 seq90 • updated 8.8 years ago by Hervé Pagès ♦♦ 14k
0
votes
3
answers
489
views
3
answers
rpy save session and package downloads
... 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 seq90 • updated 8.8 years ago by Hervé Pagès ♦♦ 14k
0
votes
1
answer
358
views
1
answer
rpy save session and package downloads
... 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 seq90 • updated 8.8 years ago by Sean Davis21k

Latest awards to rna seq

No awards yet. Soon to come :-)

Help
Access

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