Showing : RMA • reset
0
votes
5
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1.1k
views
oligo rma() background normalization crash in basicRMA()
basicRMA crash rma oligo
14 months ago Steffen Moeller ▴ 90
1
vote
1
reply
762
views
Strange error with RMA during Affymetrix data analysis
AffymetrixChip RMA
updated 17 months ago by ★ 6.5k • written 17 months ago by ▴ 10
4
votes
6
replies
1.2k
views
RMA on different disease labels
rma background microarray normalization
updated 2.5 years ago by 65k • written 2.5 years ago by • 0
1
vote
2
replies
1.0k
views
oligo package blas error
rma openblas blas oligo
2.6 years ago ch_el ▴ 10
0
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2
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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
1
vote
1
reply
521
views
RMA for multiple samples
biostatistic RMA
updated 4.7 years ago by 65k • written 4.7 years ago by ▴ 10
0
votes
5
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2.1k
views
Install a custom CDF file
makecdf RMA annotation biobase GEOquery
updated 4.8 years ago by 65k • written 4.8 years ago by • 0
0
votes
2
replies
857
views
R: rma() function error
rma normalization microarray
updated 4.8 years ago by 65k • written 4.8 years ago by • 0
1
vote
2
replies
1.4k
views
Inconsistent results when normalizing HTA2.0 arrays at "level=core"
oligo HTA2.0 affycoretools RMA fitProbeLevelModel
updated 4.8 years ago by 65k • written 4.8 years ago by ★ 3.9k
2
votes
5
replies
1.2k
views
Error in get(cdfname, object 'mm430mmentrezgcdf' not found
affy cdf rma
updated 5.5 years ago by ★ 3.9k • written 5.5 years ago by • 0
1
vote
0
replies
1.4k
views
Problems running oligo functions in parallel on a linux computer
biocparallel oligo rma linux parallel
6.4 years ago s.munster ▴ 40
0
votes
5
replies
1.8k
views
Probe summerization of Human HT-12 V4 BeadChip arrays
beadarray bead chip illuminahumanv4.db normalization RMA
updated 6.4 years ago by 65k • written 6.4 years ago by • 0
0
votes
1
reply
1.3k
views
oligo rma() function giving unused argument error
oligo rma
updated 7.1 years ago by 65k • written 7.1 years ago by ▴ 40
0
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3
replies
3.0k
views
how to use log2 transformation and limma
RMA normalization
7.1 years ago nia ▴ 30
2
votes
1
reply
1.6k
views
BrainArray Custom CDFs and oligo
oligo brainarray rma customcdf
updated 7.2 years ago by 65k • written 7.2 years ago by • 0
2
votes
1
reply
1.1k
views
perform probe level RMA without summarization
u133a normalization rma affy
updated 7.3 years ago by 65k • written 7.3 years ago by ▴ 10
0
votes
1
reply
894
views
Microarray normalization---RMA and / or centering+scaling?
microarray normalization rma
updated 7.6 years ago by 65k • written 7.6 years ago by • 0
3
votes
3
replies
2.6k
views
Problem using RMA Method in 'Oligo' with HTAFeatureset Objects
affymetrix microarrays microarray pd.hta.2.0 oligo rma
updated 8.1 years ago by 65k • written 8.1 years ago by • 0
2
votes
3
replies
2.4k
views
RAW data in matrix: RMA normalization?
RMA affy raw expression
updated 8.3 years ago by 65k • written 8.3 years ago by ▴ 110
0
votes
1
reply
1.8k
views
PLIER normalization for Affymetrix GeneChip arrays?
microarray affymetrix oligo RMA normalization
updated 8.4 years ago by 65k • written 8.4 years ago by ▴ 20
0
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1
reply
1.7k
views
Error when running "eset <- rma(affyRaw)"
rma
updated 8.4 years ago by ★ 1.0k • written 8.4 years ago by • 0
0
votes
1
reply
1.0k
views
Looking for a package allowing Affymetrix MoGene2.1ST processing
affy xps rma oligo
updated 8.4 years ago by ★ 3.9k • written 8.4 years ago by ▴ 10
0
votes
2
replies
2.0k
views
Error with Normalization using (rma) method !!!
normalization rma
updated 8.5 years ago by 65k • written 8.5 years ago by • 0
2
votes
5
replies
5.5k
views
Oligo package RMA() function giving error
oligo rma
updated 8.7 years ago by ★ 4.3k • written 8.7 years ago by ▴ 30
1
vote
7
replies
2.6k
views
reading a *.txt file of expression values into an AffyBatch
affy normalization rma
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
1
vote
4
replies
1.4k
views
mutually add a tab in the beggining of the header to make it a valid RMA format
software error probe affy RMA
8.8 years ago Angel ▴ 40
0
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1
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1.7k
views
Reading in and normalising ht-hgu133a and hgu133a files together
hgu133a rma normalization affy
updated 9.1 years ago by ▴ 830 • written 9.1 years ago by • 0
27 results • Page 1 of 1
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Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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