User: rkp

gravatar for rkp
rkp0
Reputation:
0
Status:
New User
Location:
Last seen:
2 months ago
Joined:
11 months, 1 week ago
Email:
r*********@gmail.com

Posts by rkp

<prev • 10 results • page 1 of 1 • next >
0
votes
1
answers
97
views
1
answers
Comment: A: How to extract common genes that are DE in each comparisons?
... > is.de <- decideTests(fit2, method="global") > de.in.all <- rowSums(is.de!=0) == ncol(is.de) > length(de.in.all) [1] 22810 > up.in.all <- rowSums(is.de == 1) == ncol(is.de) > length(up.in.all) [1] 22810 ...
written 9 weeks ago by rkp0
0
votes
1
answers
97
views
1
answers
Comment: A: How to extract common genes that are DE in each comparisons?
... Hi Aaron, Thank you very much for your reply but I am unable to find genes that are DE in all comparisons. It given the probe id of all the genes present in datasets instead of DEG. > is.de <- decideTests(fit2, method="global") > de.in.all <- rowSums(is.de!=0) == ncol (is.de) > leng ...
written 9 weeks ago by rkp0
1
vote
1
answer
97
views
1
answer
How to extract common genes that are DE in each comparisons?
...  I have made a Contrasts matrix as  design <- model.matrix(~0+f) colnames(design) <- levels(f) design fit <- lmFit(eset,design) names(fit) cont.matrix <- makeContrasts(C9T9="Control9-Treated9",C24T24="Control24-Treated24",........................................,levels=design) cont.matr ...
limma R bioconductor affymetrix microarrays written 9 weeks ago by rkp0
2
votes
1
answer
151
views
1
answer
Heatmap error: 'ColSideColors' must be a character vector of length ncol(x)
... > library("gplots") > heatmap.2(exprs(esetSel), col=topo.colors(75), scale="none", ColSideColors=patientcolors, +           key=TRUE, symkey=FALSE, density.info="none", trace="none", cexRow=0.5) Error in heatmap.2(exprs(esetSel), col = topo.colors(75), scale = "none",  :    'ColSideColors' mus ...
microarray limma bioconductor written 10 weeks ago by rkp0 • updated 10 weeks ago by Gordon Smyth30k
0
votes
1
answers
117
views
1
answers
Comment: C: R script for getting Common DEG genes from all comparisons by limma analysis
... Dear Gordon, Thank you very much for providing script but I have not found DEG for all contrast. It is showing NULL > results <- decideTests(fit2) > i <- rowSums(results != 0) == ncol(fit2) > fit2$genes[i,] NULL   ...
written 10 weeks ago by rkp0
0
votes
1
answer
117
views
1
answer
R script for getting Common DEG genes from all comparisons by limma analysis
... Dear All, I want to find the probe id of Common genes that are differentially expressed between all the comparisons by limma analysis. Any suggestions will be greatly appreciated. With kind regards, Rajesh ...
microarray limma R bioconductor written 10 weeks ago by rkp0 • updated 10 weeks ago by Gordon Smyth30k
2
votes
1
answer
131
views
1
answer
R script for construction of VennDiagram for eight sample
... Hi all, I wish to construct VennDiagram for eight sample comparison in limma analysis. Any suggestions will be greatly appreciated. Thanks.  Rajesh ...
limma R bioconductor written 11 weeks ago by rkp0 • updated 11 weeks ago by Aaron Lun14k
1
vote
1
answer
176
views
1
answer
What are the expression value of genes/probes in limma results of topTable
... Dear All, Kindly suggest me which value are expression value in the following table that can be utilized for plotting Heatmap.      logFC   AveExpr         t      P.Value    adj.P.Val        B   -6.828181  7.966478 -18.82087 5.665531e-14 5.032385e-10 21.33399   4.855277 10.119313  18.69994 6.38444 ...
heatmap written 10 months ago by rkp0 • updated 10 months ago by Aaron Lun14k
0
votes
1
answers
157
views
1
answers
Comment: C: package ‘org.At.tair.db’ could not be loaded
... Thank you very much Sir ...
written 11 months ago by rkp0
1
vote
1
answer
157
views
1
answer
package ‘org.At.tair.db’ could not be loaded
... library(ath1121501.db) Loading required package: org.At.tair.db Error : .onLoad failed in loadNamespace() for 'org.At.tair.db', details:   call: match.arg(synchronous, c("off", "normal", "full"))   error: 'arg' must be NULL or a character vector Error: package ‘org.At.tair.db’ could not be loaded   ...
microarray written 11 months ago by rkp0 • updated 11 months ago by Martin Morgan ♦♦ 19k

Latest awards to rkp

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 2.2.0
Traffic: 137 users visited in the last hour