Showing : affy • reset
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3
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1.2k
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How to analyze Affy data, CEL files not available
affy affy
written 18.6 years ago by ▴ 60
1
vote
2
replies
552
views
affy::rma results doesn't match with ncbi website
affy Preprocessing Microarray
updated 5 months ago by 68k • written 5 months ago by • 0
0
votes
1
reply
1.3k
views
ERROR; return code from pthread_create() is 22
affy
updated 15 months ago by 68k • written 15 months ago by • 0
1
vote
10
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1.7k
views
Obtaining pheno data from CEL files
GEO affy
17 months ago Kurtis • 0
1
vote
2
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681
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Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
17 months ago Mj.A. ▴ 20
1
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3
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863
views
frma normalization
frmaTools affy
updated 18 months ago by 68k • written 18 months ago by • 0
0
votes
11
replies
2.9k
views
globaltest question
Pathways probe affy Pathways probe affy
written 19.0 years ago by ▴ 30
0
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5
replies
2.6k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 11.7 years ago by ★ 13k
0
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6
replies
3.5k
views
Error when Installing BioConductor Package ('affy')
Bioconductor Install affy
updated 21 months ago by ★ 4.9k • written 2.8 years ago by • 0
0
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1
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1.0k
views
affy package and SNP arrays
crlmm hapmapsnp6 genomewidesnp6Crlmm affy
updated 2.2 years ago by ★ 4.0k • written 2.2 years ago by 6.7k
2
votes
3
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1.4k
views
Using gcrma() and using the t-test to compare single genes of interest for disease vs healthy comparison?
gcrma CustomCDF Affyhgu133aExpr limma affy
updated 2.4 years ago by 68k • written 2.4 years ago by ▴ 10
0
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3
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3.4k
views
*** caught segfault *** , cause 'memory not mapped'
affycoretools FRMA affyio AffymetrixDataTestFiles affy
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
0
votes
1
reply
1.6k
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limma: decideTests
affy limma affy limma
updated 2.6 years ago by 52k • written 17.7 years ago by ▴ 270
3
votes
9
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3.2k
views
Installing 'affy' package on MacOS M2 chip
nlme affy preprocessCore
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
1
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3
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1.7k
views
Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 3.9 years ago by 68k • written 3.9 years ago by • 0
0
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0
replies
1.4k
views
Reading Affymetrix Axiom files
affy SNP axiom
4.3 years ago f.calboli • 0
1
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3
replies
1.4k
views
The eBayes function gives two p-values for each row
hgu133plus2.db limma DifferentialExpression affy
updated 4.3 years ago by 52k • written 4.3 years ago by • 0
2
votes
2
replies
1.4k
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
4.3 years ago geoffrey ▴ 10
0
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1
reply
1.7k
views
filtering on variance
probe affy probe affy
updated 4.4 years ago by 52k • written 17.7 years ago by ▴ 90
0
votes
1
reply
3.1k
views
How to plot the RMA log2 normalised data from Affymetrix
log2 RMA Affymetrix affy Normalization
updated 4.5 years ago by ★ 4.0k • written 4.5 years ago by • 0
1
vote
2
replies
1.7k
views
Getting error in collapsing the affy probs
affy eset
updated 4.6 years ago by 68k • written 4.6 years ago by ▴ 30
0
votes
3
replies
1.9k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 4.7 years ago by 68k • written 4.7 years ago by • 0
5
votes
8
replies
3.4k
views
how to annotate arrays
affy annotation microarray oligo
updated 4.7 years ago by 68k • written 10.1 years ago by • 0
1
vote
3
replies
3.3k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
4.9 years ago kiera.lee ▴ 10
4
votes
7
replies
2.0k
views
Limma sample groups
microarray limma affy cancer
updated 4.9 years ago by 52k • written 4.9 years ago by • 0
0
votes
0
replies
1.0k
views
Probe Design questions
probe affy
4.9 years ago henry1995910343 • 0
0
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2
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1.5k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
5.0 years ago • updated 4.9 years ago Marco_aurelio • 0
0
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6
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1.6k
views
Problems loading latest Version of S4Vectors
affy
5.0 years ago ianrector97 • 0
5
votes
9
replies
6.2k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 5.2 years ago by ★ 4.0k • written 5.2 years ago by ▴ 40
0
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2
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1.5k
views
How to process triplicate cel data?
microarray affy cel drugmatrix
updated 5.2 years ago by 52k • written 5.2 years ago by • 0
6
votes
3
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2.0k
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 5.2 years ago by 21k • written 5.2 years ago by ▴ 40
2
votes
7
replies
1.8k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
1
vote
1
reply
967
views
Microarray Workflow - NA error
limma affy
updated 5.3 years ago by ★ 4.0k • written 5.3 years ago by • 0
3
votes
4
replies
1.5k
views
gcrma problem with make.cdf.package
gcrma make.cdf.package affy
updated 5.4 years ago by 68k • written 5.4 years ago by ▴ 40
0
votes
1
reply
1.4k
views
Problem analyzing Affymetrix Microarray data from Clariom S Mouse
affy oligo Clariom S Mouse microarray
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
0
votes
1
reply
885
views
Affymetrix microarray - Limma on timepoint experiment, how to make the design and contrast matrix ?
limma R microarray timepoint affy
updated 5.4 years ago by 4.2k • written 5.4 years ago by • 0
1
vote
1
reply
1.3k
views
Trouble using affy library
software error R microarray affy
updated 5.5 years ago by 68k • written 5.5 years ago by • 0
1
vote
1
reply
2.5k
views
How to annotate the Affymetrix data HTA-2.0 with oligo
annotation affy normalization
updated 5.5 years ago by ★ 4.1k • written 5.6 years ago by • 0
0
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2
replies
1.8k
views
3' microarray data using Affy - can't find cdf file, please help!
Affy microarray cdf
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
0
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1
reply
1.2k
views
limma Multi-level Experiments - Main effect test
limma microarray affy
updated 5.8 years ago by 52k • written 5.8 years ago by • 0
0
votes
2
replies
1.6k
views
Ask for help on the preprocessing of GEO microarray data with Oligo and affy package
affy rma frma oligo
updated 5.8 years ago by 68k • written 5.8 years ago by • 0
3
votes
2
replies
1.2k
views
issue with hgu95acdf package
affy
updated 5.8 years ago by 25k • written 5.8 years ago by • 0
0
votes
1
reply
1.3k
views
Still Not Recognizing CDF
affy CDF
5.8 years ago ekl • 0
1
vote
5
replies
2.5k
views
CDf files in R
affy CDF
updated 5.8 years ago by 68k • written 5.8 years ago by • 0
1
vote
2
replies
1.5k
views
What should I do with the package:org.Hs.eg.db?
microarray affy
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 10
2
votes
4
replies
2.2k
views
Using function select
Affy
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
3
votes
8
replies
3.6k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy limma piano
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
0
votes
0
replies
1.0k
views
Different versions of r/affy combination may lead to differences in rma normalization results
microarray affy rma normalization affy package
6.1 years ago yshuang • 0
1
vote
2
replies
2.8k
views
CDF not found
Affy microarray
updated 6.1 years ago by ★ 4.1k • written 6.1 years ago by ▴ 10
0
votes
0
replies
1.0k
views
Fold Change Calculation in edge package
edge microarray limma affy
6.2 years ago soumyab.g ▴ 10
1,805 results • Page 1 of 37
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Comment: WGCNA analysis on RNAseq and proteoimcs data by sum31278 • 0
Hi sagigordon, Can you share how you performed WGCNA analysis for proteomics data? Thanks
Comment: European Bioconductor Conference 2023 planning by inadequate.peacock.iiag • 0
I once faced a dilemma similar to this when coordinating a smaller local event; despite initial hesitation, I learned invaluable skills and…
Comment: ROAST compare results with complex design by Gordon Smyth 52k
It's also worth pointing out that the syntax for `camera` and `mroast` is the same, so I wonder how OP did the earlier `camera` analysis.
Answer: ROAST compare results with complex design by James W. MacDonald 68k
You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…
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Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
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