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rma
•
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0
votes
5
replies
1.0k
views
oligo rma() background normalization crash in basicRMA()
basicRMA
crash
rma
oligo
13 months ago
Steffen Moeller
▴ 90
1
vote
1
reply
718
views
Strange error with RMA during Affymetrix data analysis
AffymetrixChip
RMA
updated 16 months ago by
Mike Smith
★ 6.5k • written 16 months ago by
Sara
▴ 10
4
votes
6
replies
1.1k
views
RMA on different disease labels
rma
background
microarray
normalization
updated 2.4 years ago by
James W. MacDonald
65k • written 2.4 years ago by
Joshua
• 0
1
vote
2
replies
966
views
oligo package blas error
rma
openblas
blas
oligo
2.5 years ago
ch_el
▴ 10
0
votes
2
replies
995
views
Ask for help on the preprocessing of GEO microarray data with Oligo and affy package
affy
rma
frma
oligo
updated 4.4 years ago by
James W. MacDonald
65k • written 4.4 years ago by
chziy429
• 0
1
vote
1
reply
501
views
RMA for multiple samples
biostatistic
RMA
updated 4.6 years ago by
James W. MacDonald
65k • written 4.6 years ago by
ijvechetti
▴ 10
0
votes
5
replies
2.0k
views
Install a custom CDF file
makecdf
RMA
annotation
biobase
GEOquery
updated 4.7 years ago by
James W. MacDonald
65k • written 4.7 years ago by
Seymoo
• 0
0
votes
2
replies
825
views
R: rma() function error
rma
normalization
microarray
updated 4.7 years ago by
James W. MacDonald
65k • written 4.7 years ago by
get3232
• 0
1
vote
2
replies
1.3k
views
Inconsistent results when normalizing HTA2.0 arrays at "level=core"
oligo
HTA2.0
affycoretools
RMA
fitProbeLevelModel
updated 4.7 years ago by
James W. MacDonald
65k • written 4.7 years ago by
Guido Hooiveld
★ 3.9k
2
votes
5
replies
1.1k
views
Error in get(cdfname, object 'mm430mmentrezgcdf' not found
affy
cdf
rma
updated 5.4 years ago by
Guido Hooiveld
★ 3.9k • written 5.4 years ago by
Walter Jessen
• 0
1
vote
0
replies
1.4k
views
Problems running oligo functions in parallel on a linux computer
biocparallel
oligo
rma
linux
parallel
6.3 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 6.3 years ago by
James W. MacDonald
65k • written 6.3 years ago by
Seymoo
• 0
0
votes
1
reply
1.3k
views
oligo rma() function giving unused argument error
oligo
rma
updated 7.0 years ago by
James W. MacDonald
65k • written 7.0 years ago by
Jiayi Sun
▴ 40
0
votes
3
replies
3.0k
views
how to use log2 transformation and limma
RMA
normalization
7.0 years ago
nia
▴ 30
2
votes
1
reply
1.5k
views
BrainArray Custom CDFs and oligo
oligo
brainarray
rma
customcdf
updated 7.1 years ago by
James W. MacDonald
65k • written 7.1 years ago by
lcordeiro
• 0
2
votes
1
reply
1.0k
views
perform probe level RMA without summarization
u133a
normalization
rma
affy
updated 7.2 years ago by
James W. MacDonald
65k • written 7.2 years ago by
jxd_84
▴ 10
0
votes
1
reply
878
views
Microarray normalization---RMA and / or centering+scaling?
microarray
normalization
rma
updated 7.5 years ago by
James W. MacDonald
65k • written 7.5 years ago by
michaericalribo
• 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 8.0 years ago by
James W. MacDonald
65k • written 8.0 years ago by
jennifer.drake
• 0
2
votes
3
replies
2.4k
views
RAW data in matrix: RMA normalization?
RMA
affy
raw expression
updated 8.2 years ago by
James W. MacDonald
65k • written 8.2 years ago by
alexvpickering
▴ 110
0
votes
1
reply
1.8k
views
PLIER normalization for Affymetrix GeneChip arrays?
microarray
affymetrix
oligo
RMA
normalization
updated 8.3 years ago by
James W. MacDonald
65k • written 8.3 years ago by
Nathaniel
▴ 20
0
votes
1
reply
1.7k
views
Error when running "eset <- rma(affyRaw)"
rma
updated 8.3 years ago by
Axel Klenk
▴ 990 • written 8.3 years ago by
mochammad.ichsan87
• 0
0
votes
1
reply
992
views
Looking for a package allowing Affymetrix MoGene2.1ST processing
affy
xps
rma
oligo
updated 8.3 years ago by
Guido Hooiveld
★ 3.9k • written 8.3 years ago by
steppydeklin
▴ 10
0
votes
2
replies
1.9k
views
Error with Normalization using (rma) method !!!
normalization
rma
updated 8.4 years ago by
James W. MacDonald
65k • written 8.4 years ago by
libya.tahani
• 0
2
votes
5
replies
5.4k
views
Oligo package RMA() function giving error
oligo
rma
updated 8.6 years ago by
Benilton Carvalho
★ 4.3k • written 8.6 years ago by
Jo
▴ 30
1
vote
7
replies
2.6k
views
reading a *.txt file of expression values into an AffyBatch
affy
normalization
rma
updated 8.7 years ago by
James W. MacDonald
65k • written 8.7 years ago by
m
• 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
8.7 years ago
Angel
▴ 40
0
votes
1
reply
1.7k
views
Reading in and normalising ht-hgu133a and hgu133a files together
hgu133a
rma
normalization
affy
updated 9.0 years ago by
svlachavas
▴ 830 • written 9.0 years ago by
parisa_1986
• 0
27 results • Page
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Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
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Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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