Showing : affyio • reset
0
votes
9
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1.8k
views
problem with function rma
Normalization rat2302 cdf genefilter affy simpleaffy affyQCReport affyio Normalization
updated 16.9 years ago by ★ 7.4k • written 16.9 years ago by ▴ 80
0
votes
9
replies
2.1k
views
affy package RMA results difference from R2.5 to R2.8
affy affyio affy affyio
updated 15.4 years ago by ▴ 140 • written 15.4 years ago by ▴ 360
0
votes
9
replies
3.1k
views
R 2.15.1 ReadAffy error
affyio affyio
updated 11.8 years ago by ★ 1.2k • written 11.8 years ago by ★ 2.4k
0
votes
8
replies
1.6k
views
oligo on R 2.4.1?
GO Survival annotate genefilter affy affydata matchprobes affyQCReport affyio oligo GO
updated 17.2 years ago by ★ 7.4k • written 17.2 years ago by ★ 2.2k
0
votes
7
replies
1.6k
views
Problems with affycomp - quantile.default
cdf affy affycomp affyio cdf affy affycomp affyio
updated 16.7 years ago by 65k • written 16.7 years ago by ▴ 380
0
votes
6
replies
1.9k
views
ReadAffy Error: new versions causing problems?
genefilter gcrma matchprobes simpleaffy affyio genefilter gcrma matchprobes simpleaffy
updated 16.9 years ago by ▴ 20 • written 16.9 years ago by ▴ 200
0
votes
6
replies
1.4k
views
mas5 update.default problem
hgu95av2 cdf affy affyio hgu95av2 cdf affy affyio
updated 16.9 years ago by ★ 7.4k • written 16.9 years ago by ▴ 190
0
votes
5
replies
1.9k
views
affyPLM - cant plot chip pseudo image
cdf genefilter affy affydata affyPLM simpleaffy affyio cdf genefilter affy affydata
updated 16.8 years ago by 65k • written 16.8 years ago by ▴ 50
0
votes
5
replies
1.8k
views
RMA and justRMA error
Cancer cdf Biobase affy gcrma affyio Cancer cdf Biobase affy gcrma affyio
17.7 years ago Aedin Culhane ▴ 510
0
votes
4
replies
1.3k
views
Quality control;Missing value;installation
Cancer cdf affy affyQCReport affyio arrayQualityMetrics Cancer cdf affy affyQCReport
updated 15.7 years ago by ★ 5.5k • written 15.7 years ago by ▴ 200
0
votes
4
replies
1.9k
views
Failure to load Biobase
Biobase affy limma gcrma matchprobes affyio Biobase affy limma gcrma matchprobes affyio
updated 17.9 years ago by 25k • written 17.9 years ago by ★ 2.2k
0
votes
4
replies
1.6k
views
Help with Affy TilingArray makePDpackage
affyio oligo affyio oligo
updated 16.2 years ago by ★ 1.2k • written 16.2 years ago by ▴ 40
0
votes
4
replies
3.1k
views
Problems installing bioconductor on ubuntu
affyio affyio
updated 15.8 years ago by ★ 13k • written 15.8 years ago by ▴ 20
0
votes
4
replies
1.4k
views
Problems with the size of the plots obtained with AffyPLM
cdf affy gcrma affyPLM affyio cdf affy gcrma affyPLM affyio
updated 17.3 years ago by ▴ 550 • written 17.3 years ago by ▴ 350
0
votes
3
replies
1.5k
views
*** caught segfault *** , cause 'memory not mapped'
affycoretools FRMA affyio AffymetrixDataTestFiles affy
updated 13 months ago by 65k • written 13 months ago by • 0
0
votes
3
replies
991
views
beadarray example data problem 2
Biobase affy affyio beadarray Biobase affy affyio beadarray
17.5 years ago Martin Morgan 25k
0
votes
3
replies
1.3k
views
limma gene symbol not avialable problem
cdf affy affydata limma affylmGUI affyio cdf affy affydata limma affylmGUI affyio
updated 16.9 years ago by 65k • written 16.9 years ago by ▴ 450
0
votes
3
replies
1.4k
views
pd.mapping 10Karray
BiocViews cdf affyio biocViews oligo pdInfoBuilder BufferedMatrix BiocViews BiocViews cdf
updated 16.7 years ago by ★ 7.4k • written 16.7 years ago by ▴ 10
0
votes
3
replies
996
views
summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Normalization probe affy affyio Normalization probe affy affyio
updated 17.6 years ago by ★ 1.2k • written 17.6 years ago by ▴ 420
0
votes
3
replies
1.6k
views
Tiling arrays and their probes
cdf affyio cdf affyio
updated 16.0 years ago by ★ 13k • written 16.0 years ago by ★ 13k
0
votes
3
replies
2.1k
views
ReadAffy Error
Annotation ExperimentData cdf affy affyio Annotation ExperimentData cdf affy affyio
updated 16.7 years ago by ▴ 60 • written 16.7 years ago by ▴ 380
0
votes
3
replies
1.5k
views
beadarray package: problem with bead level data
geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio
updated 16.8 years ago by ▴ 40 • written 16.8 years ago by ▴ 270
0
votes
3
replies
3.0k
views
ReadAffy - Error VECTOR_ELT() can only be applied to a 'list', not a 'char'
affy affyio affy affyio
updated 16.9 years ago by ★ 1.2k • written 16.9 years ago by ▴ 510
0
votes
3
replies
1.5k
views
ExpressionSet, fitPLM confusion
cdf probe gcrma matchprobes affyPLM affyio cdf probe gcrma matchprobes affyPLM affyio
updated 17.4 years ago by ★ 13k • written 17.4 years ago by ▴ 510
0
votes
3
replies
1.3k
views
GDS2eSet problems
Biobase affy convert affyio GEOquery Biobase affy convert affyio GEOquery
16.7 years ago Mcmahon, Wyatt ▴ 50
0
votes
2
replies
1.3k
views
Changing the value of sampleNames for exprSet
affy affyio affy affyio
updated 17.7 years ago by 25k • written 17.7 years ago by ▴ 110
0
votes
2
replies
2.9k
views
Error in function (classes, fdef, mtable)
cdf genefilter reposTools gcrma matchprobes affyPLM simpleaffy affyio cdf genefilter
updated 17.4 years ago by ★ 7.4k • written 17.4 years ago by ▴ 360
0
votes
2
replies
1.5k
views
results of justPlier vs. RMA
Clustering affy plier affyio Clustering affy plier affyio
updated 17.5 years ago by ▴ 120 • written 17.5 years ago by ▴ 360
0
votes
2
replies
1.7k
views
summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Microarray Normalization Preprocessing Cancer probe affy convert affyio Microarray Cancer
17.6 years ago James W. MacDonald 65k
0
votes
2
replies
918
views
trouble with installing "affyio"
affyio rstudio docker R 3.5.0
5.4 years ago shidaxia • 0
0
votes
2
replies
1.4k
views
ReadAffy crashes on mac
Preprocessing affy convert affxparser affyio BUS Preprocessing affy convert affxparser
updated 15.7 years ago by ★ 1.2k • written 15.7 years ago by ▴ 40
0
votes
2
replies
1.0k
views
beadarray example data problem
Biobase affy affyio beadarray Biobase affy affyio beadarray
17.5 years ago Keith Satterley ▴ 450
0
votes
2
replies
916
views
problem with CoCiteStats in bioC 1.8
cdf reposTools affy CoCiteStats affyio cdf reposTools affy CoCiteStats affyio
updated 18.0 years ago by ★ 7.4k • written 18.0 years ago by ▴ 890
0
votes
2
replies
1.7k
views
cannot allocate vector of size 762 Mo ! One more time !
affy affyio trigger affy affyio trigger
updated 15.9 years ago by ★ 3.9k • written 15.9 years ago by ▴ 10
0
votes
2
replies
1.6k
views
can't load affycoretools because GOstats is broken. Can I load affycoretools without dependencies to use some functions?
GO Survival Biobase genefilter affy limma RBGL GOstats Category affyio affycoretools GO
17.2 years ago Mark W Kimpel ▴ 830
0
votes
2
replies
1.1k
views
"normalize.quantiles.robust" produces the SAME intensities from different weights?!
Normalization affydata gcrma matchprobes affyPLM affyio Normalization affydata gcrma
updated 17.6 years ago by ★ 1.2k • written 17.6 years ago by ▴ 420
0
votes
2
replies
1.3k
views
Failure to install specific packages from Bioconductor on a Linux machine running R 2.3.1
affy gcrma matchprobes affyPLM affyio affy gcrma matchprobes affyPLM affyio
updated 17.9 years ago by ▴ 50 • written 17.9 years ago by ▴ 20
0
votes
2
replies
1.2k
views
affycoretools vennSelect problem
GO Survival annotate genefilter affy graph gcrma annaffy RBGL GOstats biomaRt affyio
updated 15.9 years ago by 65k • written 15.9 years ago by ▴ 30
1
vote
2
replies
1.4k
views
se.exprs extractor question
probe affy affyio probe affy affyio
updated 16.9 years ago by ▴ 390 • written 16.9 years ago by ▴ 120
0
votes
2
replies
952
views
normalize.quantiles.robust: how to implement weights for different arrays?
cdf gcrma matchprobes affyPLM affyio cdf gcrma matchprobes affyPLM affyio
updated 17.6 years ago by ★ 6.5k • written 17.6 years ago by ▴ 420
0
votes
2
replies
991
views
"oligo" crashes in windows XP
SNP GO affyio oligo crlmm SNP GO affyio oligo crlmm
updated 17.3 years ago by ★ 4.3k • written 17.3 years ago by ▴ 190
0
votes
2
replies
1.4k
views
problem updating packages OCPlus and RSNper
affy limma affyio OCplus affy limma affyio OCplus
updated 17.6 years ago by 16k • written 17.6 years ago by ▴ 890
0
votes
2
replies
946
views
steps to manually build AffyBatch object
GO affy affyio GO affy affyio
updated 17.1 years ago by 21k • written 17.1 years ago by ★ 1.2k
0
votes
2
replies
1.1k
views
median of the NUSE value
cdf affy gcrma affyPLM affyio cdf affy gcrma affyPLM affyio
updated 17.9 years ago by ★ 1.2k • written 17.9 years ago by ▴ 270
0
votes
2
replies
1.3k
views
problem with latest version of graph
GO annotate genefilter multtest affy graph Rgraphviz RBGL GOstats affyio affycoretools
17.9 years ago Kimpel, Mark W ▴ 890
0
votes
2
replies
1.6k
views
problem with hist.default in affystart in package affycoretools
GO cdf annotate affy limma RBGL simpleaffy GOstats Category affyQCReport affyio GO cdf
updated 17.4 years ago by 65k • written 17.4 years ago by ▴ 890
0
votes
2
replies
1.1k
views
vsm2
Survival geneplotter affy vsn limma affyio Survival geneplotter affy vsn limma affyio
updated 16.6 years ago by ★ 13k • written 16.6 years ago by ▴ 70
0
votes
1
reply
1.7k
views
gcrma background correction-saving output
cdf affy gcrma matchprobes affyio cdf affy gcrma matchprobes affyio
updated 5.3 years ago by 0 • written 17.4 years ago by ★ 2.2k
0
votes
1
reply
2.8k
views
ReadAffy can not find function read.AnnotatedDataFrame
Biobase genefilter affydata limma simpleaffy hopach affyio Biobase genefilter affydata
updated 17.4 years ago by 65k • written 17.4 years ago by ▴ 510
0
votes
1
reply
877
views
qc
Survival Biobase genefilter affy affydata affyPLM simpleaffy affyio Survival Biobase
updated 17.7 years ago by 65k • written 17.7 years ago by ▴ 10
50 results • Page 1 of 1
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Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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