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Fátima Núñez
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130
@fatima-nunez-300
Last seen 10.1 years ago
Dear all,
I have recently changed my version of R form 1.8.1 to 1.9.0.
I have been trying to produce a few html pages with some of my results
and up to now I have had no problems. See below:
Locus ID Gene Symbol Affy ID Pvalue FC
17865 Mybl2 100023_at 0 1.68
12035 Bcat1 100026_at 0 1.58
22271 Upp1 100030_at 0 1.54
.
.
.
Where the first column is a hyperlink to LocusLink obtained with the
following piece of code:
library(annotate)
library(mgu74av2)
vav2onlyNames <- RES.lm[RES.lm[,"eff"]=="vav2","gene"]
vav2onlyLI <- multiget(vav2onlyNames, env = mgu74av2LOCUSID)
vav2onlySYM <- multiget(vav2onlyNames, env = mgu74av2SYMBOL)
vav2onlyRes <- data.frame (unlist(vav2onlySYM))
ll.htmlpage(vav2onlyLI, filename = "Vav2 genes.html",
title = "Vav2 genes", othernames =
data.frame(vav2onlyRes,
vav2onlyNames,RES.lm[RES.lm[,"gene"]%in%vav2onlyNames,
c("FC","Pval")]),
table.head = c("Locus ID", "Gene Symbol", "Affy ID",
"FC","Pval",), table.center = TRUE)
The problem has begun when I have started using the R version 1.9.0.
Instead of the html table format I have detailed before - and using
the
exact same code, I obtain the following:
Locus ID Gene Symbol Affy ID Pval FC
as.integer(17865) Mybl2 100023_at 0 1.68
as.integer(12035) Bcat1 100026_at 0 1.58
as.integer(22271) Upp1 100030_at 0 1.54
.
.
where the first column stops being a useful LocusLink hyperlink.
I am not totally sure this is the correct list to share my concerns,
if
not, I apologize in advance and I hope someone can give me an idea of
what is going on or direct me to the appropriate place where I could
receive help.
Thanx a lot,
Fatima
---
F?tima N??ez
Centro de Investigaci?n del C?ncer, CIC
Universidad de Salamanca-CSIC
Campus Unamuno
37007 Salamanca
Phone: + 34 923 294802
Fax: + 34 923 294795
E-mail: fnunez@usal.es
