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customCDF
•
reset
1
vote
10
replies
5.2k
views
How to use brainarray custom cdf with any bioconductor package?
affy
oligo
customcdf
9.4 years ago • updated 9.1 years ago
rishi.dasroy
▴ 20
0
votes
7
replies
2.5k
views
How to use brainarray custom cdf for HTA platform?
hta
customcdf
updated 7.2 years ago by
James W. MacDonald
65k • written 7.2 years ago by
pbachali
▴ 50
3
votes
7
replies
1.7k
views
Oligo: cannot fit robust Probe Level linear Models / fitPLM when using a custom CDF
oligo
pdinfobuilder
pd.mogene.1.1.st
customcdf
updated 7.6 years ago by
James W. MacDonald
65k • written 8.1 years ago by
Guido Hooiveld
★ 3.9k
7
votes
6
replies
5.6k
views
How to use brainarray custom cdf with oligo package?
oligo
customcdf
HTA
frma
updated 8.6 years ago by
James W. MacDonald
65k • written 8.6 years ago by
sanj
▴ 20
0
votes
5
replies
2.5k
views
Load CDF files for Affymetrix ST 2.0 microarrays
microarray
oligo
cdf
customcdf
updated 8.4 years ago by
Guido Hooiveld
★ 3.9k • written 8.4 years ago by
Nathaniel
▴ 20
5
votes
4
replies
3.2k
views
How to use custom cdf "hgu133plus2hsentrezgcdf"?
customcdf
affymetrix microarrays
hgu133plus2
affy
6.3 years ago
rahil
▴ 30
0
votes
3
replies
1.2k
views
justRMA and wrong customCDFs causing segfault
justrma
customCDF
segfault
updated 5.3 years ago by
Daniel
▴ 10 • written 8.5 years ago by
maria.lehtivaara
• 0
2
votes
3
replies
893
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
James W. MacDonald
65k • written 12 months ago by
Pratik Mehta
▴ 10
0
votes
3
replies
952
views
Custom cdf and Ensemble
customcdf
R
microarray
updated 7.3 years ago by
James W. MacDonald
65k • written 7.3 years ago by
12021560-002
• 0
0
votes
2
replies
1.1k
views
Fixing brainarray repository link for mac os x
Annotation
GO
CustomCDF
cdf
gcrma
Annotation
GO
CustomCDF
cdf
gcrma
updated 14.4 years ago by
James W. MacDonald
65k • written 14.4 years ago by
Yair Benita
▴ 80
2
votes
1
reply
1.6k
views
BrainArray Custom CDFs and oligo
oligo
brainarray
rma
customcdf
updated 7.2 years ago by
James W. MacDonald
65k • written 7.2 years ago by
lcordeiro
• 0
0
votes
1
reply
844
views
Annotations of custom cdf files
customcdf
updated 7.3 years ago by
James W. MacDonald
65k • written 7.3 years ago by
12021560-002
• 0
0
votes
0
replies
1.9k
views
Appropriate implementation of ComBat function for known batch effect correction and alternative methodologies of merging microarray datasets
sva
ComBat
customcdf
affymetrix microarrays
limma
8.3 years ago
svlachavas
▴ 830
13 results • Page
1 of 1
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Replies
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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