Showing : gcrma • reset
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Background values
Microarray gcrma simpleaffy Microarray gcrma simpleaffy
updated 17.2 years ago by ★ 13k • written 17.2 years ago by ▴ 160
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gcrma problem
cdf affy makecdfenv gcrma cdf affy makecdfenv gcrma
updated 17.2 years ago by 68k • written 17.2 years ago by ▴ 40
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Link to picture: Comparison of diff. t-statistics, Limma and rowttests
hgu133plus2 affy limma gcrma hgu133plus2 affy limma gcrma
17.2 years ago Boel Brynedal ▴ 200
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same value in an affy exprset
hgu133plus2 gcrma hgu133plus2 gcrma
updated 17.2 years ago by 68k • written 17.2 years ago by ▴ 10
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gcRMA on a GeneFeatureSet from Affy MoGene 1.0 ST v1?
Annotation probe affy gcrma PROcess oligo Annotation probe affy gcrma PROcess oligo
17.3 years ago Jean Hausser ▴ 20
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Link to picture: Comparison of diff. t-statistics, Limma and rowttests
hgu133plus2 affy limma gcrma hgu133plus2 affy limma gcrma
17.3 years ago Boel Brynedal ▴ 200
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3
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Comparison of diff. t-statistics, Limma and rowttests
hgu133plus2 affy limma gcrma hgu133plus2 affy limma gcrma
17.3 years ago Boel Brynedal ▴ 200
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Bioconductor Digest, Vol 65, Issue 23
cdf probe affy gcrma cdf probe affy gcrma
17.3 years ago Manhong Dai ▴ 200
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Problem with makePDpackage in makePlatformDesign and getCdfInfo in affy
cdf affy gcrma oligo makePlatformDesign cdf affy gcrma oligo makePlatformDesign
17.3 years ago Benjamin Lansdell ▴ 30
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Moe430A and Moe430B join
moe430a moe430b mouse4302 gcrma marray moe430a moe430b mouse4302 gcrma marray
17.3 years ago Matyas Flemr ▴ 10
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GC-content sensitive normalization of Affymetrix tiling arrays for ChIP-chip
Normalization probe gcrma Normalization probe gcrma
17.3 years ago Siobhan A. Braybrook ▴ 60
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1.8k
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GC-content sensitive normalization of Affymetrix tiling arrays for ChIP-chip
Normalization gcrma Normalization gcrma
updated 17.3 years ago by 21k • written 17.3 years ago by ▴ 50
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4
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LARGE Change in GCRMA expression values between versions (REPEAT QUESTION: PLEASE REPLY)
Cancer gcrma Cancer gcrma
updated 17.3 years ago by ▴ 260 • written 17.3 years ago by ★ 2.0k
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4
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Inconsistent annotation of affy probeset on Affymetrix chip for rat: 230.2
Microarray Annotation limma gcrma Microarray Annotation limma gcrma
updated 17.4 years ago by ★ 7.2k • written 17.4 years ago by ▴ 20
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860
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hthgu133a + gcrma = pms error
gcrma gcrma
17.4 years ago Richard Finney ▴ 180
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760
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Error in gcrma.engine2 under R 2.7
gcrma gcrma
17.4 years ago ucbtagi@ucl.ac.uk ▴ 20
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affycoretools vennSelect problem
Annotation GO Survival probe annotate genefilter affy graph limma gcrma annaffy RBGL
17.4 years ago Nick Henriquez ▴ 20
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730
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GCRMA-induced correlations? LARGE Change in GCRMA expression values (REPEAT QUESTION)
Microarray Normalization Cancer gcrma Microarray Normalization Cancer gcrma
17.4 years ago Richard Friedman ★ 2.0k
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hthgu133adim not found
gcrma gcrma
updated 17.4 years ago by 68k • written 17.4 years ago by ▴ 180
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2
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affycoretools vennSelect problem
GO Survival annotate genefilter affy graph gcrma annaffy RBGL GOstats biomaRt affyio
updated 17.4 years ago by 68k • written 17.4 years ago by ▴ 30
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960
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Issue with gcrma.engine2 and user-defined negative controls
gcrma gcrma
17.5 years ago Heidi Dvinge ★ 2.0k
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2
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1.2k
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Bug in base.profiles.nc (gcrma)?
cdf gcrma cdf gcrma
updated 17.5 years ago by ▴ 570 • written 17.5 years ago by ★ 2.0k
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gcRMA: problem compute.affinities.local on gngnf1musa
Annotation probe gcrma Annotation probe gcrma
updated 17.5 years ago by 68k • written 17.5 years ago by ▴ 90
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GCRMA-induced correlations? LARGE Change in GCRMA expression values
Microarray Normalization Cancer gcrma Microarray Normalization Cancer gcrma
updated 17.5 years ago by ★ 4.1k • written 17.5 years ago by ★ 2.0k
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stability of gene lists with gcrma and limma upon changing the number of samples in the normalization
Cancer limma gcrma Cancer limma gcrma
updated 17.6 years ago by 21k • written 17.6 years ago by ★ 2.0k
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5
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Genefilter parameters for mouse 430 2
Cancer mouse4302 genefilter limma gcrma Cancer mouse4302 genefilter limma gcrma
updated 17.6 years ago by 68k • written 17.6 years ago by ★ 2.0k
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2
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probe file for custom array
Microarray Cancer cdf probe gcrma matchprobes Microarray Cancer cdf probe gcrma
updated 17.7 years ago by ★ 1.3k • written 17.7 years ago by 68k
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Normalizing two different platforms
cdf affy gcrma cdf affy gcrma
updated 17.7 years ago by ★ 6.5k • written 17.7 years ago by ▴ 80
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gcrma with hgu133a and hgu133a2
cdf probe gcrma cdf probe gcrma
updated 17.7 years ago by 68k • written 17.7 years ago by ▴ 40
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877
views
GCRMA background correction for a subset of genes
affy gcrma affy gcrma
updated 18.0 years ago by ▴ 950 • written 18.0 years ago by ▴ 30
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RMA vs gcRMA on 2 groups of samples
Normalization gcrma Normalization gcrma
18.0 years ago Bogdan Tanasa ▴ 10
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6
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2.0k
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RMA vs gcRMA on 2 groups of samples
Normalization GO gcrma Normalization GO gcrma
updated 18.0 years ago by ★ 6.0k • written 18.0 years ago by ▴ 670
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error message in gcrma
gcrma gcrma
18.0 years ago Yan Zhang ▴ 130
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1.1k
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request for simple usage of probe level normalisations
cdf gcrma oligo pdInfoBuilder cdf gcrma oligo pdInfoBuilder
updated 18.1 years ago by ★ 6.5k • written 18.1 years ago by ▴ 320
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Agilent 4x44 single color expression arrays
Normalization probe vsn limma gcrma Normalization probe vsn limma gcrma
18.1 years ago Ido M. Tamir ▴ 320
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code for technical replicates in Limma with affy
Survival cdf annotate affy limma gcrma matchprobes affyio Survival cdf annotate affy
18.1 years ago Richard Friedman ★ 2.0k
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problem with probes2tableBM
Annotation GO Survival hgu133a2 annotate genefilter affy graph gcrma matchprobes GOstats
updated 18.1 years ago by ▴ 500 • written 18.1 years ago by ▴ 510
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948
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GSB adjustment in GCRMA
gcrma gcrma
updated 18.1 years ago by ▴ 260 • written 18.1 years ago by ▴ 80
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1.0k
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GCRMA works for my updated cdf and probesequence files.
cdf probe gcrma cdf probe gcrma
updated 18.2 years ago by ▴ 450 • written 18.2 years ago by ▴ 130
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gcrma problem caused by using updated new CDF and probesequence?
Normalization hgu133a hgu95a cdf probe affy gcrma PROMISE Normalization hgu133a hgu95a
18.2 years ago Yan Zhang ▴ 130
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975
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how to install updated CDF package and probe package in R to run GCRMA?
cdf probe gcrma cdf probe gcrma
18.2 years ago Yan Zhang ▴ 130
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7
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2.3k
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problem with GOstats, developmental version?
GO Survival hgu95av2 annotate affy affydata graph Rgraphviz limma gcrma matchprobes GO
updated 18.2 years ago by ★ 7.4k • written 18.2 years ago by ★ 2.2k
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1.4k
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Question about inconsistent gene expression
Microarray Cancer hgu133plus2 probe affy limma gcrma Microarray Cancer hgu133plus2 probe
updated 18.2 years ago by ▴ 120 • written 18.2 years ago by ▴ 40
0
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1.3k
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Questions about Affymetrix E. Coli arrays
Normalization Cancer affy gcrma affyPLM Normalization Cancer affy gcrma affyPLM
18.2 years ago Jenny Drnevich ★ 2.2k
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1.6k
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How to get probeset ID
rae230a cdf affy gcrma matchprobes rae230a cdf affy gcrma matchprobes
updated 18.3 years ago by 68k • written 18.3 years ago by ▴ 310
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3
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1.2k
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Problems with gcrma using latest version of R and Bioconductor
Normalization cdf gcrma Normalization cdf gcrma
updated 18.3 years ago by 68k • written 18.3 years ago by ▴ 60
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2
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1.4k
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how to make probe environments for use with GCRMA
cdf makecdfenv gcrma cdf makecdfenv gcrma
updated 18.3 years ago by ▴ 50 • written 18.3 years ago by ▴ 290
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Return of "I'm sorry, I do not know about chip type (foo)"
Survival cdf affydata limma gcrma matchprobes affyPLM simpleaffy Survival cdf affydata
18.3 years ago Dave Jacoby ▴ 20
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9
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2.5k
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gcrma error? - linked to makeProbePackage ?
cdf probe affy makecdfenv gcrma matchprobes cdf probe affy makecdfenv gcrma matchprobes
updated 18.4 years ago by 68k • written 18.4 years ago by ▴ 90
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3
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1.4k
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trouble using GCRMA
Yeast cdf gcrma Yeast cdf gcrma
updated 18.4 years ago by ▴ 200 • written 18.4 years ago by ▴ 10
406 results • Page 3 of 9
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Comment: Suppress warning in RHDF5 write by nicolas.lhuillier • 0
Thanks a lot for the quick and effective reply. I had tried "suppressWarnings" but not "suppressMessages".
Answer: Suppress warning in RHDF5 write by James W. MacDonald 68k
``` > fun <- function() message("this is a message") > fun() this is a message > suppressMessages(fun()) > ```
Answer: Failure to download resources (MeSHDb) from AnnotationHub by shepherl 4.2k
apologies. These are contributed by someone outside the core team. On upload I did not realize they included the older Bioconductor storage…
Answer: "Watched Tags" are being erased rather than updated by shepherl 4.2k
This should now be resolved
Answer: Question about collapsing ASVs by genus level during DESeq2 analysis by Michael Love 43k
I'll just note that microbiome stats folks tend to use other tools than DESeq2. > several ASVs belong to the same genus but are not iden…
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Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
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