Showing : affy • reset
1
vote
2
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358
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affy::rma results doesn't match with ncbi website
affy Preprocessing Microarray
updated 4 days ago by 68k • written 5 days ago by • 0
0
votes
1
reply
992
views
ERROR; return code from pthread_create() is 22
affy
updated 10 months ago by 68k • written 10 months ago by • 0
1
vote
10
replies
1.3k
views
Obtaining pheno data from CEL files
GEO affy
11 months ago Kurtis • 0
1
vote
2
replies
524
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function rma_function ExpressionSet MicroarrayData affy
12 months ago Mj.A. • 0
1
vote
3
replies
729
views
frma normalization
frmaTools affy
updated 13 months ago by 68k • written 13 months ago by • 0
0
votes
11
replies
2.6k
views
globaltest question
Pathways probe affy Pathways probe affy
written 18.5 years ago by ▴ 30
0
votes
5
replies
2.4k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 11.2 years ago by ★ 13k
0
votes
6
replies
3.2k
views
Error when Installing BioConductor Package ('affy')
Bioconductor Install affy
updated 16 months ago by ★ 4.7k • written 2.3 years ago by • 0
0
votes
1
reply
954
views
affy package and SNP arrays
crlmm hapmapsnp6 genomewidesnp6Crlmm affy
updated 21 months ago by ★ 4.0k • written 21 months ago by 6.7k
2
votes
3
replies
1.3k
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 23 months ago by 68k • written 23 months ago by ▴ 10
0
votes
3
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2.9k
views
*** caught segfault *** , cause 'memory not mapped'
affycoretools FRMA affyio AffymetrixDataTestFiles affy
updated 24 months ago by 68k • written 24 months ago by • 0
0
votes
1
reply
1.5k
views
limma: decideTests
affy limma affy limma
updated 2.2 years ago by 52k • written 17.3 years ago by ▴ 270
3
votes
9
replies
3.0k
views
Installing 'affy' package on MacOS M2 chip
nlme affy preprocessCore
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
1
vote
3
replies
1.5k
views
Microarray - Illumina Metadata
limma GEO MicroarrayData affy
updated 3.5 years ago by 68k • written 3.5 years ago by • 0
0
votes
0
replies
1.2k
views
Reading Affymetrix Axiom files
affy SNP axiom
3.8 years ago f.calboli • 0
1
vote
3
replies
1.3k
views
The eBayes function gives two p-values for each row
hgu133plus2.db limma DifferentialExpression affy
updated 3.8 years ago by 52k • written 3.9 years ago by • 0
2
votes
2
replies
1.3k
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
3.9 years ago geoffrey ▴ 10
0
votes
1
reply
1.6k
views
filtering on variance
probe affy probe affy
updated 3.9 years ago by 52k • written 17.3 years ago by ▴ 90
0
votes
1
reply
2.8k
views
How to plot the RMA log2 normalised data from Affymetrix
log2 RMA Affymetrix affy Normalization
updated 4.1 years ago by ★ 4.0k • written 4.1 years ago by • 0
1
vote
2
replies
1.5k
views
Getting error in collapsing the affy probs
affy eset
updated 4.2 years ago by 68k • written 4.2 years ago by ▴ 30
0
votes
3
replies
1.7k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 4.2 years ago by 68k • written 4.3 years ago by • 0
5
votes
8
replies
3.2k
views
how to annotate arrays
affy annotation microarray oligo
updated 4.3 years ago by 68k • written 9.6 years ago by • 0
1
vote
3
replies
3.1k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
4.4 years ago kiera.lee ▴ 10
4
votes
7
replies
1.9k
views
Limma sample groups
microarray limma affy cancer
updated 4.5 years ago by 52k • written 4.5 years ago by • 0
0
votes
0
replies
922
views
Probe Design questions
probe affy
4.5 years ago henry1995910343 • 0
0
votes
2
replies
1.4k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
4.5 years ago Marco_aurelio • 0
0
votes
6
replies
1.4k
views
Problems loading latest Version of S4Vectors
affy
4.6 years ago ianrector97 • 0
5
votes
9
replies
4.7k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 4.7 years ago by ★ 4.0k • written 4.7 years ago by ▴ 40
0
votes
2
replies
1.3k
views
How to process triplicate cel data?
microarray affy cel drugmatrix
updated 4.8 years ago by 52k • written 4.8 years ago by • 0
6
votes
3
replies
1.8k
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 4.8 years ago by 21k • written 4.8 years ago by ▴ 40
2
votes
7
replies
1.6k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 4.8 years ago by 68k • written 4.8 years ago by • 0
1
vote
1
reply
891
views
Microarray Workflow - NA error
limma affy
updated 4.9 years ago by ★ 4.0k • written 4.9 years ago by • 0
3
votes
4
replies
1.3k
views
gcrma problem with make.cdf.package
gcrma make.cdf.package affy
updated 4.9 years ago by 68k • written 4.9 years ago by ▴ 40
0
votes
1
reply
1.3k
views
Problem analyzing Affymetrix Microarray data from Clariom S Mouse
affy oligo Clariom S Mouse microarray
updated 4.9 years ago by 68k • written 4.9 years ago by • 0
0
votes
1
reply
822
views
Affymetrix microarray - Limma on timepoint experiment, how to make the design and contrast matrix ?
limma R microarray timepoint affy
updated 5.0 years ago by 4.1k • written 5.0 years ago by • 0
1
vote
1
reply
1.2k
views
Trouble using affy library
software error R microarray affy
updated 5.0 years ago by 68k • written 5.0 years ago by • 0
1
vote
1
reply
2.3k
views
How to annotate the Affymetrix data HTA-2.0 with oligo
annotation affy normalization
updated 5.1 years ago by ★ 4.1k • written 5.1 years ago by • 0
0
votes
2
replies
1.6k
views
3' microarray data using Affy - can't find cdf file, please help!
Affy microarray cdf
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
0
votes
1
reply
1.1k
views
limma Multi-level Experiments - Main effect test
limma microarray affy
updated 5.3 years ago by 52k • written 5.4 years ago by • 0
0
votes
2
replies
1.4k
views
Ask for help on the preprocessing of GEO microarray data with Oligo and affy package
affy rma frma oligo
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
3
votes
2
replies
1.1k
views
issue with hgu95acdf package
affy
updated 5.4 years ago by 25k • written 5.4 years ago by • 0
0
votes
1
reply
1.2k
views
Still Not Recognizing CDF
affy CDF
5.4 years ago ekl • 0
1
vote
5
replies
2.3k
views
CDf files in R
affy CDF
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
1
vote
2
replies
1.4k
views
What should I do with the package:org.Hs.eg.db?
microarray affy
updated 5.4 years ago by 25k • written 5.4 years ago by ▴ 10
2
votes
4
replies
2.0k
views
Using function select
Affy
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
3
votes
8
replies
3.4k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy limma piano
updated 5.5 years ago by 68k • written 5.5 years ago by • 0
0
votes
0
replies
935
views
Different versions of r/affy combination may lead to differences in rma normalization results
microarray affy rma normalization affy package
5.6 years ago yshuang • 0
1
vote
2
replies
2.6k
views
CDF not found
Affy microarray
updated 5.6 years ago by ★ 4.1k • written 5.6 years ago by ▴ 10
0
votes
0
replies
944
views
Fold Change Calculation in edge package
edge microarray limma affy
5.8 years ago soumyab.g ▴ 10
6
votes
8
replies
2.2k
views
How to find out the genes that changes in expression by using gene level expression data matrix?
limma microarray affy edger
5.8 years ago Jurat Shahidin ▴ 80
50 results • Page 1 of 1
Recent ...
Replies
Comment: DiffBind custom normalization factor by Abbie • 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2? by James W. MacDonald 68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
Comment: Using TPM from tximport of Salmon output for singscore by Kent • 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore by Michael Love 43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
Comment: DESeq2 model - How to test case/control time course model when taking account wi by Michael Love 43k
I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
A: use tximport's countsFromAbundance when using DESeq2
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