Showing : affy • reset
1
vote
10
replies
456
views
Obtaining pheno data from CEL files
GEO affy
4 weeks ago • updated 27 days ago Kurtis • 0
1
vote
2
replies
230
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
5 weeks ago Mj.A. • 0
0
votes
6
replies
1.3k
views
LIMMA : design (1, 2, 3, 3 ) , I got EXCITING results, what could be the logic, since i have 2 replicates for 3rd group only ?
affy affy
updated 9 weeks ago by 50k • written 19.0 years ago by ★ 1.1k
1
vote
3
replies
363
views
frma normalization
frmaTools affy
updated 10 weeks ago by 65k • written 11 weeks ago by • 0
0
votes
11
replies
2.1k
views
globaltest question
Pathways probe affy Pathways probe affy
written 17.7 years ago by ▴ 30
0
votes
5
replies
2.0k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 10.3 years ago by ★ 13k
0
votes
6
replies
2.1k
views
Error when Installing BioConductor Package ('affy')
Bioconductor Install affy
updated 5 months ago by ★ 4.1k • written 17 months ago by • 0
0
votes
2
replies
1.4k
views
Minimum expression threshold?
multtest affy multtest affy
updated 8 months ago by • 0 • written 20.7 years ago by ▴ 20
0
votes
1
reply
614
views
affy package and SNP arrays
crlmm hapmapsnp6 genomewidesnp6Crlmm affy
updated 10 months ago by ★ 3.9k • written 10 months ago by 6.7k
2
votes
3
replies
897
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 12 months ago by 65k • written 12 months ago by ▴ 10
0
votes
3
replies
1.6k
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
1
reply
1.3k
views
limma: decideTests
affy limma affy limma
updated 15 months ago by 50k • written 16.4 years ago by ▴ 270
0
votes
0
replies
1.6k
views
limma: decideTests
limma probe affy
16.4 years ago • updated 15 months ago Gordon Smyth 50k
3
votes
9
replies
2.3k
views
Installing 'affy' package on MacOS M2 chip
nlme affy preprocessCore
updated 19 months ago by 65k • written 19 months ago by • 0
1
vote
3
replies
1.1k
views
Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 2.6 years ago by 65k • written 2.6 years ago by • 0
0
votes
0
replies
857
views
Reading Affymetrix Axiom files
affy SNP axiom
3.0 years ago f.calboli • 0
1
vote
3
replies
967
views
The eBayes function gives two p-values for each row
hgu133plus2.db limma DifferentialExpression affy
updated 3.0 years ago by 50k • written 3.0 years ago by • 0
2
votes
2
replies
986
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
3.0 years ago geoffrey ▴ 10
0
votes
1
reply
1.4k
views
filtering on variance
probe affy probe affy
updated 3.0 years ago by 50k • written 16.4 years ago by ▴ 90
0
votes
3
replies
3.7k
views
How do I choose between using affy or oligo package for preprocessing microarrays?
microarray affymetrix microarrays affy oligo
updated 3.2 years ago by 65k • written 7.3 years ago by • 0
0
votes
1
reply
2.0k
views
How to plot the RMA log2 normalised data from Affymetrix
log2 RMA Affymetrix affy Normalization
updated 3.2 years ago by ★ 3.9k • written 3.2 years ago by • 0
1
vote
2
replies
1.1k
views
Getting error in collapsing the affy probs
affy eset
updated 3.3 years ago by 65k • written 3.3 years ago by ▴ 30
0
votes
3
replies
1.4k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 3.4 years ago by 65k • written 3.4 years ago by • 0
5
votes
8
replies
2.5k
views
how to annotate arrays
affy annotation microarray oligo
updated 3.4 years ago by 65k • written 8.8 years ago by • 0
1
vote
3
replies
2.4k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
3.6 years ago kiera.lee ▴ 10
4
votes
7
replies
1.5k
views
Limma sample groups
microarray limma affy cancer
updated 3.6 years ago by 50k • written 3.6 years ago by • 0
0
votes
0
replies
660
views
Probe Design questions
probe affy
3.6 years ago henry1995910343 • 0
0
votes
2
replies
1.1k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
3.6 years ago Marco_aurelio • 0
0
votes
6
replies
1.1k
views
Problems loading latest Version of S4Vectors
affy
3.7 years ago ianrector97 • 0
5
votes
9
replies
3.1k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 3.9 years ago by ★ 3.9k • written 3.9 years ago by ▴ 30
0
votes
2
replies
992
views
How to process triplicate cel data?
microarray affy cel drugmatrix
updated 3.9 years ago by 50k • written 3.9 years ago by • 0
6
votes
3
replies
1.4k
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 3.9 years ago by 21k • written 3.9 years ago by ▴ 40
2
votes
7
replies
1.2k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 3.9 years ago by 65k • written 3.9 years ago by • 0
1
vote
1
reply
644
views
Microarray Workflow - NA error
limma affy
updated 4.0 years ago by ★ 3.9k • written 4.0 years ago by • 0
3
votes
4
replies
1.0k
views
gcrma problem with make.cdf.package
gcrma make.cdf.package affy
updated 4.0 years ago by 65k • written 4.0 years ago by ▴ 40
0
votes
1
reply
931
views
Problem analyzing Affymetrix Microarray data from Clariom S Mouse
affy oligo Clariom S Mouse microarray
updated 4.1 years ago by 65k • written 4.1 years ago by • 0
0
votes
1
reply
599
views
Affymetrix microarray - Limma on timepoint experiment, how to make the design and contrast matrix ?
limma R microarray timepoint affy
updated 4.1 years ago by 3.9k • written 4.1 years ago by • 0
1
vote
1
reply
1.0k
views
Trouble using affy library
software error R microarray affy
updated 4.1 years ago by 65k • written 4.1 years ago by • 0
1
vote
1
reply
1.7k
views
How to annotate the Affymetrix data HTA-2.0 with oligo
annotation affy normalization
updated 4.2 years ago by ★ 3.9k • written 4.2 years ago by • 0
0
votes
2
replies
1.3k
views
3' microarray data using Affy - can't find cdf file, please help!
Affy microarray cdf
updated 4.4 years ago by 65k • written 4.4 years ago by • 0
0
votes
1
reply
867
views
limma Multi-level Experiments - Main effect test
limma microarray affy
updated 4.5 years ago by 50k • written 4.5 years ago by • 0
0
votes
2
replies
1.0k
views
Ask for help on the preprocessing of GEO microarray data with Oligo and affy package
affy rma frma oligo
updated 4.5 years ago by 65k • written 4.5 years ago by • 0
3
votes
2
replies
877
views
issue with hgu95acdf package
affy
updated 4.5 years ago by 25k • written 4.5 years ago by • 0
0
votes
1
reply
938
views
Still Not Recognizing CDF
affy CDF
4.5 years ago ekl • 0
1
vote
5
replies
1.7k
views
CDf files in R
affy CDF
updated 4.5 years ago by 65k • written 4.5 years ago by • 0
1
vote
2
replies
989
views
What should I do with the package:org.Hs.eg.db?
microarray affy
updated 4.5 years ago by 25k • written 4.5 years ago by ▴ 10
2
votes
4
replies
1.5k
views
Using function select
Affy
updated 4.5 years ago by 65k • written 4.5 years ago by • 0
3
votes
8
replies
2.4k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy limma piano
updated 4.6 years ago by 65k • written 4.6 years ago by • 0
0
votes
0
replies
732
views
Different versions of r/affy combination may lead to differences in rma normalization results
microarray affy rma normalization affy package
4.7 years ago yshuang • 0
1
vote
2
replies
2.0k
views
CDF not found
Affy microarray
updated 4.7 years ago by ★ 3.9k • written 4.7 years ago by ▴ 10
50 results • Page 1 of 1
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Comment: Why does GSEA on edgeR results for randomized samples give highly significant p- by gene_bioconductor ▴ 10
Thanks for your thoughtful and detailed comment, Gordon
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I looked into the genomic distributions. Please see the screenshot attatched ![ distrubution for female loci, boot1 and boot2][1] how do …
Answer: How to save the DEXSeq results by Michael Love 41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups by Robert Castelo ★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways" by James W. MacDonald 65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
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Answer: Method to find pathways different between 2 groups
Answer: Method to find pathways different between 2 groups
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
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