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CDF
•
reset
0
votes
0
replies
131
views
crlmm: CDF for Infinium Global Diversity Array By Illumina
globaldiversityarray
cdf
crlmm
6 weeks ago
mayra.haedo
• 0
0
votes
1
reply
831
views
rma normalization using microarray data
cdf
updated 16 months ago by
James W. MacDonald
65k • written 16 months ago by
Charmy
• 0
0
votes
2
replies
1.3k
views
3' microarray data using Affy - can't find cdf file, please help!
Affy
microarray
cdf
updated 4.4 years ago by
James W. MacDonald
65k • written 4.4 years ago by
meganlloyd
• 0
0
votes
1
reply
934
views
Still Not Recognizing CDF
affy
CDF
4.5 years ago
ekl
• 0
0
votes
4
replies
936
views
CDF still not found
CDF
Package
updated 4.5 years ago by
James W. MacDonald
65k • written 4.5 years ago by
ekl
• 0
1
vote
5
replies
1.7k
views
CDf files in R
affy
CDF
updated 4.5 years ago by
James W. MacDonald
65k • written 4.5 years ago by
ekl
• 0
0
votes
1
reply
1.7k
views
gcrma background correction-saving output
cdf
affy
gcrma
matchprobes
affyio
cdf
affy
gcrma
matchprobes
affyio
updated 5.3 years ago by
Bioconductor Community
0 • written 17.4 years ago by
Jenny Drnevich
★ 2.2k
2
votes
5
replies
1.2k
views
Error in get(cdfname, object 'mm430mmentrezgcdf' not found
affy
cdf
rma
updated 5.5 years ago by
Guido Hooiveld
★ 3.9k • written 5.5 years ago by
Walter Jessen
• 0
0
votes
1
reply
1.7k
views
Error in exprs(object)[index, , drop = FALSE] : subscript out of bounds while using GCRMA
gcrma
wheatcdf
cdf
updated 5.7 years ago by
James W. MacDonald
65k • written 5.7 years ago by
deepak.juit
• 0
0
votes
0
replies
1.5k
views
creating custom cdf file
annotation
cdf
5.9 years ago
obaloglu
• 0
0
votes
8
replies
4.0k
views
error ReadAffy
Arabidopsis thaliana
cdf
affy
gcrma
PROcess
oligo
xps
Arabidopsis thaliana
cdf
affy
xps
updated 6.1 years ago by
joseph.a.white1
• 0 • written 10.2 years ago by
nooshin
▴ 300
2
votes
2
replies
2.7k
views
Issue with 'Could not obtain CDF environment' after attempting to extract information out of an AffyBatch object
Affy
cdf
.cel
updated 6.1 years ago by
James W. MacDonald
65k • written 6.1 years ago by
maxime.vanhaeverbeke
• 0
0
votes
4
replies
1.5k
views
How to make custom CDF file for Clariom D human chip
clariom D
CDF
updated 6.1 years ago by
Guido Hooiveld
★ 3.9k • written 6.1 years ago by
kritikamish99
▴ 10
0
votes
2
replies
2.5k
views
Processing array with R
cdf
software error
affy
R
updated 6.3 years ago by
James W. MacDonald
65k • written 6.3 years ago by
Charlie
• 0
0
votes
0
replies
1.1k
views
segfault when trying to convert hta20_Hs_ENSE_22.cdf to binary format
affxparser
cdf
hta2.0
6.9 years ago
relathman
▴ 20
0
votes
0
replies
1.1k
views
Minfi reading command error
minfi
error
command
read.metharray.exp
cdf
6.9 years ago
niutster
• 0
1
vote
3
replies
3.0k
views
How to analyse clariom d human files
limma
pdinfobuilder
affy
cdf
7.1 years ago
yusuf.khan
▴ 10
0
votes
4
replies
1.5k
views
huex10stv2cdf annotation file needed
cdf
microarray
affy
updated 7.2 years ago by
James W. MacDonald
65k • written 7.2 years ago by
arisarkar88
▴ 40
0
votes
1
reply
917
views
Custom cdf files and genes
cdf
microarray
r3.2.2
updated 7.3 years ago by
James W. MacDonald
65k • written 7.3 years ago by
12021560-002
• 0
0
votes
4
replies
1.2k
views
Could you give me some suggestions for update Affy .cdf file
cdf
affy
microarray
7.8 years ago
cmzuo13
• 0
2
votes
3
replies
1.8k
views
i need AGI code as my probset
affy
cdf
probe
8.4 years ago • updated 8.2 years ago
Angel
▴ 40
0
votes
2
replies
1.7k
views
How to use cdf version20 with oligo package
oligo
cdf
updated 8.3 years ago by
James W. MacDonald
65k • written 8.3 years ago by
sylvia
▴ 10
0
votes
2
replies
1.6k
views
a question about getCdfInfo package in GCRMA, thanks for your help.
cdf
cdf
updated 8.3 years ago by
zhilongjia
• 0 • written 12.6 years ago by
liuyang zhao
▴ 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
1
vote
1
reply
1.1k
views
altcdfenvs get wrapCdfEnvAffy error
software error
microarray
cdf
updated 8.8 years ago by
James W. MacDonald
65k • written 8.8 years ago by
Iain Gallagher
▴ 930
3
votes
7
replies
4.3k
views
miRNA microarray analysis
microarray
cdf
updated 9.1 years ago by
Gordon Smyth
50k • written 9.1 years ago by
aswathym
▴ 10
0
votes
1
reply
2.9k
views
Array Express HuGene-1_1-st-v1 CDF problem
cdf
microarray
affy
updated 9.1 years ago by
James W. MacDonald
65k • written 9.1 years ago by
mlyall
• 0
2
votes
2
replies
1.3k
views
problem with custom cdf
microarray
affy
hgu133plus2
annotation
cdf
updated 9.4 years ago by
James W. MacDonald
65k • written 9.4 years ago by
tadoktor
• 0
6
votes
2
replies
1.9k
views
Should I skip the eBayes step when using Limma for Affymetrix miRNA v1 chip?
miRNA
cdf
probe
limma
miRNA
cdf
probe
limma
updated 9.6 years ago by
Gordon Smyth
50k • written 9.7 years ago by
Guest User
★ 13k
0
votes
2
replies
2.1k
views
HGU133Plus2 CDF vs hgu133plus2hsentrezgcdf CDF (30% difference in results)
GO
hgu133plus2
cdf
affy
limma
updated 9.6 years ago by
Steve Lianoglou
★ 13k • written 9.6 years ago by
Guest User
★ 13k
0
votes
5
replies
2.0k
views
Using custom CDF with 'make.cdf.env'
miRNA
cdf
probe
miRNA
cdf
probe
updated 9.7 years ago by
Scott Robinson
▴ 130 • written 9.7 years ago by
Guest User
★ 13k
0
votes
1
reply
1.2k
views
Can't use package [pd.mapping250k.sty]
cdf
cdf
updated 9.7 years ago by
James W. MacDonald
65k • written 9.7 years ago by
Marcelo Pereira
▴ 70
0
votes
9
replies
2.7k
views
frma and alternative CDFs
GO
cdf
frma
BRAIN
GO
cdf
frma
BRAIN
updated 9.8 years ago by
Matthew McCall
▴ 830 • written 9.8 years ago by
Guest User
★ 13k
0
votes
4
replies
2.2k
views
.cel file processing is not working for an old array
cdf
PROcess
cdf
PROcess
updated 9.8 years ago by
James W. MacDonald
65k • written 9.8 years ago by
Maria Kesa
▴ 30
0
votes
4
replies
1.6k
views
error with makecdfenv package
Annotation
cdf
makecdfenv
oligo
xps
Annotation
cdf
makecdfenv
oligo
xps
updated 9.8 years ago by
cstrato
★ 3.9k • written 9.8 years ago by
James W. MacDonald
65k
0
votes
1
reply
1.3k
views
Error in Data.frame for mogene10stv1cdf and mogene10sttranscriptcluster.db
cdf
cdf
updated 9.8 years ago by
James W. MacDonald
65k • written 9.9 years ago by
Joel Ma
▴ 50
0
votes
2
replies
3.7k
views
justRMA couldn't obtain CDF environment
cdf
cdf
updated 9.9 years ago by
James W. MacDonald
65k • written 9.9 years ago by
Li Liu
▴ 100
0
votes
2
replies
1.6k
views
makecdfenv package bug
cdf
affy
affxparser
oligo
cdf
affy
affxparser
oligo
updated 9.9 years ago by
Danny Arends
▴ 10 • written 9.9 years ago by
James W. MacDonald
65k
0
votes
6
replies
1.5k
views
Package "makecdfenv"
cdf
cdf
10.0 years ago
James W. MacDonald
65k
0
votes
0
replies
1.1k
views
NaNs in RMA normalization of GSE31312
Normalization
cdf
Normalization
cdf
10.0 years ago
Guest User
★ 13k
0
votes
1
reply
1.7k
views
1. comparing chip Information in meta analysis / Rankprod and 2. two color normalization
cdf
RankProd
cdf
RankProd
updated 10.0 years ago by
Stefanie Busch
▴ 30 • written 10.0 years ago by
Pekka Kohonen
▴ 190
0
votes
1
reply
1.6k
views
Reading MAGE-ML cdf into bioconductor for limma in R v. 3.0.2
Microarray
cdf
probe
makecdfenv
RMAGEML
ArrayExpress
Microarray
cdf
probe
makecdfenv
updated 10.1 years ago by
James W. MacDonald
65k • written 10.1 years ago by
Guest User
★ 13k
0
votes
2
replies
2.2k
views
make.cdf.package Error in copySubstitute
GO
cdf
Biobase
affy
GO
cdf
Biobase
affy
updated 10.1 years ago by
James W. MacDonald
65k • written 10.1 years ago by
matthew vitalone
▴ 30
0
votes
1
reply
991
views
problem in making cdf package_makecdfenv
Microarray
cdf
Microarray
cdf
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
amit kumar subudhi
▴ 130
0
votes
3
replies
1.8k
views
CRLMM Annotation file
SNP
Annotation
cdf
SNP
Annotation
cdf
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Venu Pullabhatla
▴ 40
0
votes
1
reply
993
views
Problem with this package
cdf
cdf
updated 10.3 years ago by
James W. MacDonald
65k • written 10.3 years ago by
Farahdeeba Shaikh
▴ 10
0
votes
1
reply
1.5k
views
Error during installation packages
cdf
cdf
updated 10.3 years ago by
James W. MacDonald
65k • written 10.3 years ago by
Elodie Chapeaublanc
▴ 70
0
votes
0
replies
1.8k
views
Missing probesets when creating Affymetrix GeneChip miRNA 4.0 CDF package using makecdfenv package
miRNA
Annotation
cdf
makecdfenv
miRNA
Annotation
cdf
makecdfenv
10.3 years ago
Isaac Neuhaus
▴ 360
0
votes
3
replies
2.0k
views
how to extract probes for a probeset from PdInfo database?
miRNA
cdf
affy
miRNA
cdf
affy
updated 10.3 years ago by
Benilton Carvalho
★ 4.3k • written 10.3 years ago by
Guido Hooiveld
★ 3.9k
0
votes
0
replies
1.5k
views
Missing probesets when creating Affymetrix GeneChip miRNA 4.0 CDF package using makecdfenv package
miRNA
cdf
affy
makecdfenv
affxparser
miRNA
cdf
affy
makecdfenv
affxparser
10.3 years ago
James W. MacDonald
65k
50 results • Page
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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
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Answer: limma Intercept vs No-intercept models completely changing DMR results?
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Comment: CombineArrays for EPIC and EPIC V2
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Thank you Tim, this is a great help in getting me started!
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