Showing : affy • reset
0
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3
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1.3k
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How to analyze Affy data, CEL files not available
affy affy
written 18.7 years ago by ▴ 60
1
vote
2
replies
623
views
affy::rma results doesn't match with ncbi website
affy Preprocessing Microarray
updated 7 months ago by 68k • written 7 months ago by • 0
0
votes
1
reply
1.4k
views
ERROR; return code from pthread_create() is 22
affy
updated 17 months ago by 68k • written 17 months ago by • 0
1
vote
10
replies
1.8k
views
Obtaining pheno data from CEL files
GEO affy
19 months ago Kurtis • 0
1
vote
2
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734
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
19 months ago Mj.A. ▴ 20
1
vote
3
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914
views
frma normalization
frmaTools affy
updated 20 months ago by 68k • written 20 months ago by • 0
0
votes
11
replies
3.0k
views
globaltest question
Pathways probe affy Pathways probe affy
written 19.1 years ago by ▴ 30
0
votes
5
replies
2.7k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 11.8 years ago by ★ 13k
0
votes
6
replies
3.5k
views
Error when Installing BioConductor Package ('affy')
Bioconductor Install affy
updated 23 months ago by ★ 5.0k • written 2.9 years ago by • 0
0
votes
1
reply
1.1k
views
affy package and SNP arrays
crlmm hapmapsnp6 genomewidesnp6Crlmm affy
updated 2.4 years ago by ★ 4.0k • written 2.4 years ago by 6.7k
2
votes
3
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1.5k
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 2.5 years ago by 68k • written 2.6 years ago by ▴ 10
0
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3
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3.6k
views
*** caught segfault *** , cause 'memory not mapped'
affycoretools FRMA affyio AffymetrixDataTestFiles affy
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
votes
1
reply
1.6k
views
limma: decideTests
affy limma affy limma
updated 2.8 years ago by 53k • written 17.9 years ago by ▴ 270
3
votes
9
replies
3.4k
views
Installing 'affy' package on MacOS M2 chip
nlme affy preprocessCore
updated 3.0 years ago by 68k • written 3.1 years ago by • 0
1
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3
replies
1.7k
views
Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 4.1 years ago by 68k • written 4.1 years ago by • 0
0
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0
replies
1.4k
views
Reading Affymetrix Axiom files
affy SNP axiom
4.5 years ago f.calboli • 0
1
vote
3
replies
1.4k
views
The eBayes function gives two p-values for each row
hgu133plus2.db limma DifferentialExpression affy
updated 4.5 years ago by 53k • written 4.5 years ago by • 0
2
votes
2
replies
1.4k
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
4.5 years ago geoffrey ▴ 10
0
votes
1
reply
1.8k
views
filtering on variance
probe affy probe affy
updated 4.5 years ago by 53k • written 17.9 years ago by ▴ 90
0
votes
1
reply
3.2k
views
How to plot the RMA log2 normalised data from Affymetrix
log2 RMA Affymetrix affy Normalization
updated 4.7 years ago by ★ 4.0k • written 4.7 years ago by • 0
1
vote
2
replies
1.7k
views
Getting error in collapsing the affy probs
affy eset
updated 4.8 years ago by 68k • written 4.8 years ago by ▴ 30
0
votes
3
replies
2.0k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 4.9 years ago by 68k • written 4.9 years ago by • 0
5
votes
8
replies
3.5k
views
how to annotate arrays
affy annotation microarray oligo
updated 4.9 years ago by 68k • written 10.3 years ago by • 0
1
vote
3
replies
3.4k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
5.1 years ago kiera.lee ▴ 10
4
votes
7
replies
2.1k
views
Limma sample groups
microarray limma affy cancer
updated 5.1 years ago by 53k • written 5.1 years ago by • 0
0
votes
0
replies
1.1k
views
Probe Design questions
probe affy
5.1 years ago henry1995910343 • 0
0
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2
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1.6k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
5.1 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
5.2 years ago ianrector97 • 0
5
votes
9
replies
6.4k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by ▴ 40
0
votes
2
replies
1.5k
views
How to process triplicate cel data?
microarray affy cel drugmatrix
updated 5.4 years ago by 53k • written 5.4 years ago by • 0
6
votes
3
replies
2.1k
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 5.4 years ago by 21k • written 5.4 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 5.4 years ago by 68k • written 5.4 years ago by • 0
1
vote
1
reply
997
views
Microarray Workflow - NA error
limma affy
updated 5.5 years ago by ★ 4.0k • written 5.5 years ago by • 0
3
votes
4
replies
1.5k
views
gcrma problem with make.cdf.package
gcrma make.cdf.package affy
updated 5.5 years ago by 68k • written 5.5 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 5.5 years ago by 68k • written 5.5 years ago by • 0
0
votes
1
reply
921
views
Affymetrix microarray - Limma on timepoint experiment, how to make the design and contrast matrix ?
limma R microarray timepoint affy
updated 5.6 years ago by 4.2k • written 5.6 years ago by • 0
1
vote
1
reply
1.4k
views
Trouble using affy library
software error R microarray affy
updated 5.6 years ago by 68k • written 5.6 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 5.7 years ago by ★ 4.1k • written 5.7 years ago by • 0
0
votes
2
replies
1.8k
views
3' microarray data using Affy - can't find cdf file, please help!
Affy microarray cdf
updated 5.9 years ago by 68k • written 5.9 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 6.0 years ago by 53k • written 6.0 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 6.0 years ago by 68k • written 6.0 years ago by • 0
3
votes
2
replies
1.2k
views
issue with hgu95acdf package
affy
updated 6.0 years ago by 25k • written 6.0 years ago by • 0
0
votes
1
reply
1.3k
views
Still Not Recognizing CDF
affy CDF
6.0 years ago ekl • 0
1
vote
5
replies
2.6k
views
CDf files in R
affy CDF
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
1
vote
2
replies
1.6k
views
What should I do with the package:org.Hs.eg.db?
microarray affy
updated 6.0 years ago by 25k • written 6.0 years ago by ▴ 10
2
votes
4
replies
2.2k
views
Using function select
Affy
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
3
votes
8
replies
3.8k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy limma piano
updated 6.1 years ago by 68k • written 6.1 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
6.2 years ago yshuang • 0
1
vote
2
replies
2.9k
views
CDF not found
Affy microarray
updated 6.2 years ago by ★ 4.1k • written 6.2 years ago by ▴ 10
0
votes
0
replies
1.0k
views
Fold Change Calculation in edge package
edge microarray limma affy
6.4 years ago soumyab.g ▴ 10
1,805 results • Page 1 of 37
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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
we can investigate this issue. thank you for bringing it to our attention
Comment: deseq2 filter the low counts by Michael Love 43k
> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…
Comment: deseq2 filter the low counts by empty_mt • 0
Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …
Comment: deseq2 filter the low counts by Michael Love 43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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