Displaying 9 results from an estimated 9 matches for "madata".
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2010 Jul 13
0
object of class madata
Hi,
Am using maanova package for doing anova.But am getting error like
this..plz, help me regarding this..
> TGR=read.madata("rmaexpr.dat",designfile="design.dat")
Reading one color array.
Otherwise change arrayType='twoColor' then read the data again
Warning messages:
1: In read.madata("rmaexpr.dat", designfile = "design.dat") :
Assume that the first column is probeid....
2010 Jul 06
2
Could not find createData function
...39;openVignette()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation(pkgname)'.
> library(maanova)
Attaching package: 'maanova'
The following object(s) are masked from 'package:base':
norm
> abf1.raw <- read.madata("gcrmadata.expr.
dat", designfile="design.dat",
+ probeID=1, pmt=2, spotflag=F)
Reading one color array.
Otherwise change arrayType='twoColor' then read the data again
Warning messages:
1: In read.madata("gcrmadata.expr.dat", designfile = "design....
2002 Aug 13
1
R CMD check: Too long [R] code line generated (PR#1900)
...e that reads the source file,
could given an explicit error saying that the "line was too long".
EXAMPLE:
In my case I got in perl '@Rfiles' was:
"R/LogBook.R R/LogEntry.R R/GenePixData.R R/Layout.R R/ImaGeneData.R
R/MicroarrayData.PLOT.R R/QualityData.R R/MicroarrayData.R R/MAData.R
R/MAData.NORM.R R/zzz.R R/Replicates.R R/SMA.R R/FieldFilter.R R/Filter.R
R/QuantArrayData.R R/RGData.R R/RawData.R R/000.R R/MicroarrayData.IO.R
R/LayoutGroups.R R/BFilter.R R/com.braju.sma.R R/Copy of TFilter.R R/Copy of
SSMatrix.R R/private.utils.R R/WangetalData.R R/KHessFilter.R R/DfFilter.R...
2010 Jul 06
0
Error in createData function
...39;openVignette()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation(pkgname)'.
> library(maanova)
Attaching package: 'maanova'
The following object(s) are masked from 'package:base':
norm
> abf1.raw <- read.madata("gcrmadata.expr.
dat", designfile="design.dat",
+ probeID=1, pmt=2, spotflag=F)
Reading one color array.
Otherwise change arrayType='twoColor' then read the data again
Warning messages:
1: In read.madata("gcrmadata.expr.dat", designfile = "design....
2002 Aug 14
1
FW: R CMD check: Too long [R] code line generated (PR#1900)
...e "line was too long".
> > >
> > > EXAMPLE:
> > > In my case I got in perl '@Rfiles' was:
> > > "R/LogBook.R R/LogEntry.R R/GenePixData.R R/Layout.R R/ImaGeneData.R
> > > R/MicroarrayData.PLOT.R R/QualityData.R R/MicroarrayData.R R/MAData.R
> > > R/MAData.NORM.R R/zzz.R R/Replicates.R R/SMA.R R/FieldFilter.R
> > R/Filter.R
> > > R/QuantArrayData.R R/RGData.R R/RawData.R R/000.R R/MicroarrayData.IO.R
> > > R/LayoutGroups.R R/BFilter.R R/com.braju.sma.R R/Copy of
> > TFilter.R R/Copy of
> >...
2002 Aug 14
0
source() crashes on long lines (PR#1900)
...icit error saying that the "line was too long".
> >
> > EXAMPLE:
> > In my case I got in perl '@Rfiles' was:
> > "R/LogBook.R R/LogEntry.R R/GenePixData.R R/Layout.R R/ImaGeneData.R
> > R/MicroarrayData.PLOT.R R/QualityData.R R/MicroarrayData.R R/MAData.R
> > R/MAData.NORM.R R/zzz.R R/Replicates.R R/SMA.R R/FieldFilter.R
> R/Filter.R
> > R/QuantArrayData.R R/RGData.R R/RawData.R R/000.R R/MicroarrayData.IO.R
> > R/LayoutGroups.R R/BFilter.R R/com.braju.sma.R R/Copy of
> TFilter.R R/Copy of
> > SSMatrix.R R/private.uti...
2010 Jul 20
0
Error in using matest function
Hi,
While doing matest, i got errors like tis.Can u please help me in solving
these errors.
test.all = matest(madata, fit.full.mix, test.method=c(1,1),
+ shuffle.method="sample", term="Treatment",n.perm=100)
Doing F-test on observed data ...
Error in ma.svd(X, method = "dgesvd") : infinite or missing values in 'x'
In addition: Warning messages:
1: In FUN(newX[, i], ...) : coe...
2007 Nov 13
0
Difficult to set a quiet formula in maanova
...I used the following code:
> library(vsn)
> todos <- read.matrix("todos_v1_e_v2_back_c.txt",sep="\t")
> todos.norm <- vsn2(todos)
> write.table(exprs(todos.norm),"todos.norm.txt",sep="\t")
> library(maanova)
> fabiana.raw <- read.madata("todos.norm.vsn2.maanova.txt", designfile="design.txt", header=TRUE, spotflag=FALSE,CloneID=1,metarow=2, metacol=3, pmt=4)
> fabiana <- createData(fabiana.raw, n.rep=2, avgreps=1, log.trans=FALSE)
> model.full.mix <- makeModel(data=fabiana, formula=~Var+Trat+Time+Sam...
2010 Jul 26
1
After writing data in MMF using SEXP structure, can i reference in R?
...Message-ID:
<AANLkTi=mQ5bhntKQbfUapHpWNWpVLn+[158]Hzat_FD6jpZF6 at mail.gmail.com>
Content-Type: text/plain
Hi,
I am using maanova package for analysis. In my dataset, two fixed factors
time and treatment and sample as random factor is there. Am able to get
madata object and fitmaanova object. But, am unable to do f-test with two
factors, but i have done f-test seperately for two factors.
fit.full.mix <- fitmaanova(madata, formula = ~Sample+Time+Treatment,
random = ~Sample)
ftest.all = *matest*(madata, fit.full.mix, test.method=c(1, 1)...