Showing : affy • reset
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justRMA() using different versions of affy
affy preprocessCore xps affy preprocessCore xps
updated 16.4 years ago by ★ 1.2k • written 16.4 years ago by ★ 3.9k
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multtest: how to adjust multiple contrasts in a single run?
moe430a multtest affy limma moe430a multtest affy limma
16.4 years ago Guido Hooiveld ★ 4.1k
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1
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1.0k
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Error using crlmm
Normalization affy crlmm Normalization affy crlmm
updated 16.4 years ago by ★ 4.3k • written 16.4 years ago by ▴ 50
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4
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2.1k
views
GSEABase on none affy data/mapping problem(?)
Annotation GO Cancer probe affy Annotation GO Cancer probe affy
updated 16.4 years ago by 25k • written 16.4 years ago by ▴ 40
0
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0
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1.2k
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(control vs treatment) in (wildtype vs mutant) microarray analysis
affy limma affy limma
16.4 years ago Cheng-Yuan Kao ▴ 100
0
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3
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1.4k
views
Simpleaffy QC
affy affy
updated 16.4 years ago by ▴ 400 • written 16.4 years ago by ★ 1.3k
0
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1
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1.9k
views
Affy Gene ST arrays with "oligo"
BiocViews Annotation Organism affy PROcess biocViews BiocViews BiocViews Annotation affy
updated 16.4 years ago by ★ 3.9k • written 16.4 years ago by ▴ 830
0
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4
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Does factDesign deal with two-color data?
Microarray genefilter affy factDesign Microarray genefilter affy factDesign
updated 16.4 years ago by ▴ 70 • written 16.4 years ago by ▴ 240
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4
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1.4k
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Illumina vs Affy chips
affy affy
updated 16.4 years ago by ★ 3.9k • written 16.4 years ago by ▴ 750
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0
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670
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Illumina vs Affy chips
affy beadarray lumi xps affy beadarray lumi xps
16.4 years ago Sean Davis 21k
0
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2
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1.5k
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Affy Exon arrays
affy exonmap affy exonmap
updated 16.4 years ago by ★ 3.9k • written 16.4 years ago by ▴ 570
0
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2
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3.2k
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Random effects and variance components (was: Yet another nested design in limma)
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
updated 16.4 years ago by 68k • written 16.4 years ago by ▴ 320
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0
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887
views
MAS5 to selected average
hgu133a affy hgu133a affy
16.4 years ago James W. MacDonald 68k
0
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0
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2.6k
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comparing affymetrix and agilent microarray data
cdf probe affy cdf probe affy
16.5 years ago Jarek Bryk ▴ 110
2
votes
2
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3.7k
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(control vs treatment) in (wildtype vs mutant) microarray analysis
affy limma affy limma
updated 16.5 years ago by ▴ 400 • written 16.5 years ago by ▴ 100
0
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1
reply
1.1k
views
past bioc releases
affy affy
updated 16.5 years ago by ▴ 150 • written 16.5 years ago by ▴ 30
0
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0
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1.3k
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limma and technical rep dye-swaps
affy limma affy limma
16.5 years ago Nathan.Watson-Haigh@csiro.au ▴ 210
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2
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3.1k
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Yet another nested design in limma
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
updated 16.5 years ago by ▴ 320 • written 16.5 years ago by 53k
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0
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1.3k
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Yet another nested design in limma
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
16.5 years ago Paolo Innocenti ▴ 320
0
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2
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1.4k
views
Question regarding Affy SNP 5.0/BI_SNP arrays
SNP Annotation cdf affy PROcess oligo SNP Annotation cdf affy PROcess oligo
updated 16.5 years ago by ▴ 40 • written 16.5 years ago by ▴ 120
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4
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1.6k
views
Breaking the "most genes not differentially expressed" assumption
Normalization affy limma Normalization affy limma
updated 16.5 years ago by ★ 13k • written 16.5 years ago by ▴ 320
0
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0
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1.1k
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Yet another nested design in limma
affy limma affy limma
16.5 years ago Paolo Innocenti ▴ 320
0
votes
2
replies
2.4k
views
How to obtain a CDF file
cdf affy cdf affy
updated 16.5 years ago by ★ 1.1k • written 16.5 years ago by ▴ 10
0
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1
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1.3k
views
Finding transcription factors controlling hk1 gene In timecourse experiment
Transcription TimeCourse affy timecourse Transcription TimeCourse affy timecourse
updated 16.5 years ago by ▴ 110 • written 16.5 years ago by ▴ 10
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0
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1.1k
views
reading binary .CEL files in MACOSX
affy affy
16.6 years ago Martino Barenco ▴ 110
0
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2
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5.6k
views
How to go from affymetrix to Ensembl transcript IDs
hgu95av2 affy biomaRt hgu95av2 affy biomaRt
updated 16.6 years ago by ★ 13k • written 16.6 years ago by ▴ 300
0
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0
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646
views
Masking feature in rma analysis
affy affy
16.6 years ago Khan, Sohail ▴ 490
0
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2
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2.5k
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RMA implemented in oligo package vs affy package
ExperimentData cdf affy PROcess oligo ExperimentData cdf affy PROcess oligo
16.6 years ago heyi xiao ▴ 360
0
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3
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1.3k
views
Normalize data across platforms
Normalization affy Normalization affy
updated 16.6 years ago by ★ 3.4k • written 16.6 years ago by ▴ 280
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2
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1.0k
views
Error in PLW package plw()
affy plw affy plw
updated 16.6 years ago by 25k • written 16.6 years ago by ▴ 140
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0
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1.3k
views
[R] Need to build package for Affy HT HG-U133+ PM arrays
Annotation GO cdf probe affy pdInfoBuilder Annotation GO cdf probe affy pdInfoBuilder
16.7 years ago James W. MacDonald 68k
0
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7
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2.5k
views
ragene10st
Annotation GO Rattus norvegicus ChipName cdf probe affy AnnotationDbi AffyCompatible GO
updated 16.7 years ago by ▴ 630 • written 16.7 years ago by ▴ 370
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5
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3.7k
views
From eSet to AffyBatch Object
geneplotter affy geneplotter affy
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 120
0
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1
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1.4k
views
(CRLMM) an issue needs to be clarified
SNP affy crlmm SNP affy crlmm
16.7 years ago Ping-Hsun Hsieh ▴ 30
0
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0
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1.3k
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affyPLM QC vignette is missing...
probe Biobase affy gcrma matchprobes affyPLM probe Biobase affy gcrma matchprobes
16.7 years ago Jenny Drnevich ★ 2.0k
0
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2
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1.2k
views
Cannot find MoGene-1.0
cdf affy cdf affy
updated 16.7 years ago by ▴ 200 • written 16.7 years ago by ▴ 300
0
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1
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1.7k
views
GSEABase GOCollection wrong ontology
Annotation GO hgu133plus2 affy GSEABase Annotation GO hgu133plus2 affy GSEABase
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 330
0
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1
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1.1k
views
Yet another nested design in limma
affy limma affy limma
updated 16.7 years ago by ★ 6.0k • written 16.7 years ago by ▴ 320
0
votes
1
reply
925
views
RGList to AffyBatch conversion
affy limma affy limma
updated 16.8 years ago by ★ 2.3k • written 16.8 years ago by ▴ 90
0
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7
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1.6k
views
old version of affy package 1.5.8
affy affy
16.8 years ago Leonor Palmeira ▴ 100
0
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1
reply
1.8k
views
SimpeAffy: how to get/generate qcdef file?
cdf probe affy simpleaffy cdf probe affy simpleaffy
updated 16.8 years ago by ▴ 30 • written 16.8 years ago by ▴ 170
0
votes
1
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872
views
old version of affy package 1.5.8
Microarray affy Microarray affy
updated 16.8 years ago by 68k • written 16.8 years ago by ▴ 100
0
votes
3
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2.0k
views
Problem with RMA using pdInfoBuilder, oligo and limma
cdf probe affy limma pdInfoBuilder cdf probe affy limma pdInfoBuilder
16.8 years ago Anne-Marie Madore ▴ 30
0
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5
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2.0k
views
biomaRt and Ensembl probe set filter....
cdf probe affy graph limma biomaRt cdf probe affy graph limma biomaRt
updated 16.8 years ago by 68k • written 16.8 years ago by ▴ 110
0
votes
0
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1.1k
views
PLPE error
Microarray affy LPE PLPE Microarray affy LPE PLPE
16.8 years ago Dennis.Burian@faa.gov ▴ 90
0
votes
3
replies
2.5k
views
Affymetrix preprocessing, MAS5 vs. RMA
affy affy
updated 16.8 years ago by ★ 1.9k • written 16.8 years ago by ▴ 20
0
votes
4
replies
1.5k
views
Normalizing after MAS 5.0
Normalization probe affy Normalization probe affy
updated 16.8 years ago by 68k • written 16.8 years ago by ▴ 320
0
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0
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1.4k
views
SAM warning
Biophysics Alignment Annotation Normalization Cancer hgu133plus2 probe affy vsn MBCB vsn
16.8 years ago elliot harrison ▴ 230
0
votes
0
replies
999
views
Filtering before differential expression analysis of microarrays - New paper out
Biophysics Normalization affy vsn Biophysics Normalization affy vsn
16.8 years ago Steve Lianoglou ★ 13k
0
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0
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1.1k
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multiple locations for probeset in hgu133plus2CHRLOC vs. UCSC PSL data
Alignment Annotation Cancer hgu133plus2 probe affy Biostrings Alignment Annotation Cancer
16.8 years ago rgentleman ★ 5.5k
1,805 results • Page 13 of 37
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Replies
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…
Votes
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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