Showing : Agi4x44PreProcess • reset
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How to do three-color agilent microarray analysis
microarray limma normalization agi4x44preprocess
updated 11.0 years ago by 53k • written 11.0 years ago by • 0
5
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9
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Agi4x44PreProcess for Bioconductor version 3.0
Agi4x44PreProcess
11.1 years ago dimitri.leonid.lindenwald ▴ 50
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Agi4x44Preprocess - error on read.AgilentFE fucntion
limma Agi4x44PreProcess limma Agi4x44PreProcess
updated 12.0 years ago by 68k • written 12.0 years ago by ★ 13k
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comparing qpcr and chip
Agi4x44PreProcess HTqPCR Agi4x44PreProcess HTqPCR
13.5 years ago marco fabbri ▴ 320
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Error: Re: Annotation Database for Agilent 8x60K Human Gene Expression Arrays
Annotation probe affy AnnotationDbi Agi4x44PreProcess Annotation probe affy AnnotationDbi
updated 13.5 years ago by ★ 7.2k • written 13.6 years ago by ▴ 200
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Annotation Database for Agilent 8x60K Human Gene Expression Arrays
Microarray Annotation Agi4x44PreProcess Microarray Annotation Agi4x44PreProcess
updated 13.6 years ago by ★ 7.2k • written 13.6 years ago by ▴ 200
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Problem with BGandNorm() from the Agi4x44PreProcess package
vsn Agi4x44PreProcess vsn Agi4x44PreProcess
13.8 years ago marco fabbri ▴ 320
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Trouble using Agi4x44tPreProcess to anaylise old files
miRNA limma Agi4x44PreProcess miRNA limma Agi4x44PreProcess
13.8 years ago matthew vitalone ▴ 30
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Agi4x44Preprocess/Limma and number of significant p-values
Microarray Annotation limma Agi4x44PreProcess Microarray Annotation limma Agi4x44PreProcess
updated 14.2 years ago by ▴ 30 • written 14.2 years ago by ▴ 200
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1.3k
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Agi4x44Preprocess/Limma and number of significant p-values
Microarray Annotation limma Agi4x44PreProcess Microarray Annotation limma Agi4x44PreProcess
updated 14.2 years ago by ▴ 110 • written 14.2 years ago by ▴ 200
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best annotation package for drosophila (agilent gene expression)?
Annotation Agi4x44PreProcess Annotation Agi4x44PreProcess
14.3 years ago Jarek Bryk ▴ 110
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4
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Agi4x44PreProcess package: Error in build.est
Agi4x44PreProcess Agi4x44PreProcess
updated 14.3 years ago by ▴ 80 • written 14.3 years ago by ▴ 20
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FW: normalization one color microarrays
Normalization hgug4112a PROcess Agi4x44PreProcess Normalization hgug4112a PROcess
14.4 years ago Paz Tapia Ramirez ▴ 150
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1
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2.3k
views
Error in` [. Data.frame `(obj, , columns [[a]]): undefined columns selected"
Agi4x44PreProcess Agi4x44PreProcess
updated 14.5 years ago by ▴ 40 • written 14.5 years ago by ▴ 150
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1.6k
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Agi4x44PreProcess /filtering probenames from GeneName
Annotation probe Agi4x44PreProcess Annotation probe Agi4x44PreProcess
updated 14.8 years ago by ★ 13k • written 14.8 years ago by ▴ 10
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annotation for Mouse GE 8x60K
Annotation Agi4x44PreProcess Annotation Agi4x44PreProcess
15.0 years ago marco fabbri ▴ 320
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1.0k
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Agi4x44PreProcess - Replicated Genes Error
Annotation probe Agi4x44PreProcess Annotation probe Agi4x44PreProcess
updated 15.5 years ago by ▴ 120 • written 15.5 years ago by ▴ 40
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Agi4x44PreProcess: INPUT DATA DOES NOT CONTAIN - Sequence and chr_coord SCANN THE DATA USING AFE 9.5.3.1 Error in read.AgilentFE(targets, makePLOT = …
hgug4112a Agi4x44PreProcess hgug4112a Agi4x44PreProcess
updated 15.5 years ago by ▴ 460 • written 15.5 years ago by ▴ 20
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filtering individual flagged values in Agi4x44PreProcess
Annotation probe Agi4x44PreProcess Annotation probe Agi4x44PreProcess
15.5 years ago Leslie M. Turner ▴ 10
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1.5k
views
Annotation in Agi4x44PreProcess
Annotation zebrafish probe Agi4x44PreProcess Annotation zebrafish probe Agi4x44PreProcess
updated 15.5 years ago by ★ 7.2k • written 15.5 years ago by ▴ 40
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Agi4x44PreProcess Problem
Agi4x44PreProcess Agi4x44PreProcess
updated 15.7 years ago by ▴ 10 • written 15.7 years ago by ▴ 10
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3
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1.7k
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within array normalization for one color agilent array.??
Normalization Agi4x44PreProcess Normalization Agi4x44PreProcess
updated 15.9 years ago by 21k • written 15.9 years ago by ▴ 100
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Agi4x44PreProcess - Filtering Probe Function
Annotation Agi4x44PreProcess Annotation Agi4x44PreProcess
16.0 years ago Yong Li ▴ 190
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Agi4x44PreProcess - Filtering Probe Function
Annotation Agi4x44PreProcess Annotation Agi4x44PreProcess
16.0 years ago BJORN GILL ▴ 10
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Agi4x44PreProcess 1.4.0 question: use of genes.rpt.agi() and Gene Sets
hgug4112a probe limma Agi4x44PreProcess hgug4112a probe limma Agi4x44PreProcess
16.1 years ago Pedro Lopez-Romero ▴ 120
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Agi4x44PreProcess
convert GEOquery Agi4x44PreProcess convert GEOquery Agi4x44PreProcess
updated 16.1 years ago by ▴ 460 • written 16.1 years ago by ★ 1.3k
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3
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1.6k
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Agilent Array Analysis Question
affy limma Agi4x44PreProcess AgiMicroRna affy limma Agi4x44PreProcess AgiMicroRna
updated 16.2 years ago by ★ 1.3k • written 16.2 years ago by ▴ 350
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Agi4x44PreProcess - Replicated genes
Annotation GUI probe Agi4x44PreProcess Annotation GUI probe Agi4x44PreProcess
updated 16.2 years ago by ★ 1.3k • written 16.2 years ago by ▴ 460
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3
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1.7k
views
agi4x44preprocess
Agi4x44PreProcess Agi4x44PreProcess
updated 16.2 years ago by ▴ 430 • written 16.2 years ago by ▴ 460
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build.mappings() from Agi4x44PreProcess is not helping me today
GO GUI hgug4112a limma PROcess Agi4x44PreProcess GO GUI hgug4112a limma PROcess
16.5 years ago Massimo Pinto ▴ 390
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Agi4x44PreProcess probe summarization bug?
Agi4x44PreProcess Agi4x44PreProcess
16.6 years ago Tobias Straub ▴ 430
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2
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1.3k
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limma and matrix design for single channel arrays - in search of a primer.
Microarray limma Agi4x44PreProcess Microarray limma Agi4x44PreProcess
updated 16.7 years ago by 68k • written 16.7 years ago by ▴ 390
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problem with reading agilent microarray data into agi4x44preprocess
mgug4122a Agi4x44PreProcess mgug4122a Agi4x44PreProcess
16.7 years ago Jarek Bryk ▴ 110
0
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3
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1.5k
views
read.targets() in the Agi4x44PreProcess package
Agi4x44PreProcess Agi4x44PreProcess
updated 16.7 years ago by ▴ 120 • written 16.7 years ago by ▴ 390
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2
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1.3k
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Problem loading data for Agi4x44PreProcess
Cancer Agi4x44PreProcess Cancer Agi4x44PreProcess
16.7 years ago Bernal-Mizrachi, Leon ▴ 50
0
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3
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1.5k
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Agi4x44PreProcess: filtration of probes using filter.probes() returns an empty RGList (re-posted, due to earlier post failure)
Agi4x44PreProcess Agi4x44PreProcess
updated 16.7 years ago by ▴ 120 • written 16.7 years ago by ▴ 390
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0
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854
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Agi4x44PreProcess: filtration of probes using filter.probes() returns an empty RGList.
Agi4x44PreProcess Agi4x44PreProcess
16.7 years ago Massimo Pinto ▴ 390
0
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2
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1.4k
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Agi4x44PreProcess for miRNA data
miRNA Agi4x44PreProcess miRNA Agi4x44PreProcess
updated 16.9 years ago by ▴ 40 • written 16.9 years ago by ▴ 120
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1
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1.2k
views
Agi4x44PreProcess for miRNA data
miRNA Agi4x44PreProcess miRNA Agi4x44PreProcess
updated 16.9 years ago by ▴ 190 • written 16.9 years ago by ▴ 40
0
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0
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1.2k
views
Queries on the 4x44PreProcess Package
Normalization ctc limma Agi4x44PreProcess Normalization ctc limma Agi4x44PreProcess
16.9 years ago Pedro López Romero ▴ 360
40 results • Page 1 of 1
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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
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Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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