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makecdfenv
•
reset
0
votes
5
replies
1.5k
views
Affymetrix Promoter tiling array
cdf
makecdfenv
cdf
makecdfenv
17.6 years ago
Wu, Xiwei
▴ 350
0
votes
5
replies
1.5k
views
Importing CDF file for custom array using makecdfenv
Microarray
GO
Survival
Cancer
cdf
Biobase
annotate
genefilter
affy
graph
makecdfenv
GO
updated 17.4 years ago by
Sung-Chur Sim
▴ 20 • written 17.4 years ago by
Jenny Drnevich
★ 2.2k
2
votes
4
replies
1.5k
views
Help with microarray analysis (forming cdf files)
microarray
affy
makecdfenv
updated 8.9 years ago by
James W. MacDonald
65k • written 8.9 years ago by
SSK
▴ 10
0
votes
2
replies
973
views
makecdfenv error
cdf
makecdfenv
cdf
makecdfenv
updated 19.0 years ago by
James W. MacDonald
65k • written 19.0 years ago by
Ambika Sundaresan
▴ 10
0
votes
2
replies
1.1k
views
how to make probe environments for use with GCRMA
cdf
makecdfenv
gcrma
cdf
makecdfenv
gcrma
updated 16.7 years ago by
claire
▴ 50 • written 16.7 years ago by
Wittner, Ben
▴ 290
0
votes
3
replies
1.7k
views
CDF package in R (windows)
cdf
affy
makecdfenv
cdf
affy
makecdfenv
16.8 years ago
Salim Charaniya
▴ 20
0
votes
3
replies
1.1k
views
INstalling devel version
Microarray
Pharmacogenomics
Annotation
GO
Cancer
cdf
probe
affy
makecdfenv
limma
annaffy
19.6 years ago
Mayte Suarez-Farinas
▴ 300
0
votes
4
replies
1.2k
views
makecdfenv
cdf
makecdfenv
cdf
makecdfenv
updated 17.3 years ago by
Martin Morgan
25k • written 17.3 years ago by
Wolfgang Huber
★ 13k
0
votes
2
replies
1.3k
views
Creating Custom CDF
cdf
makecdfenv
cdf
makecdfenv
updated 14.7 years ago by
James W. MacDonald
65k • written 14.7 years ago by
naresh kumar
▴ 40
1
vote
4
replies
2.9k
views
Missing probesets when creating Affymetrix GeneChip miRNA 4.0 CDF package using makecdfenv package
miRNA
Microarray
cdf
makecdfenv
miRNA
Microarray
cdf
makecdfenv
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Guest User
★ 13k
0
votes
4
replies
1.7k
views
affyPLM and exon array question
cdf
affy
makecdfenv
affyPLM
cdf
affy
makecdfenv
affyPLM
updated 16.9 years ago by
Ben Bolstad
★ 1.2k • written 16.9 years ago by
Allen Day
▴ 30
0
votes
1
reply
755
views
Selecting probe pairs for analysis
cdf
probe
makecdfenv
cdf
probe
makecdfenv
updated 19.6 years ago by
lgautier@altern.org
▴ 950 • written 19.6 years ago by
Hee Siew Wan
▴ 60
0
votes
1
reply
745
views
problems using cdfenv
zebrafish
cdf
makecdfenv
simpleaffy
zebrafish
cdf
makecdfenv
simpleaffy
updated 19.5 years ago by
James W. MacDonald
65k • written 19.5 years ago by
Georg Otto
▴ 510
0
votes
2
replies
968
views
cdf environment for bovine Affy chips
cdf
makecdfenv
cdf
makecdfenv
19.1 years ago
Margaret Gardiner-Garden
▴ 160
0
votes
1
reply
1.1k
views
solicitation for Affy bovine cdf environment
cdf
affy
makecdfenv
cdf
affy
makecdfenv
updated 19.0 years ago by
James W. MacDonald
65k • written 19.0 years ago by
Anjanette Watson
▴ 10
0
votes
2
replies
1.0k
views
Missing probesets
cdf
affy
makecdfenv
cdf
affy
makecdfenv
updated 18.9 years ago by
rgentleman
★ 5.5k • written 18.9 years ago by
Malick.PAYE@eu.biomerieux.com
▴ 110
0
votes
1
reply
825
views
makecdfenv bug
GO
makecdfenv
GO
makecdfenv
updated 18.9 years ago by
Seth Falcon
★ 7.4k • written 18.9 years ago by
Cyrus Harmon
▴ 140
0
votes
1
reply
1.0k
views
affymetrix CDF file problem
cdf
makecdfenv
cdf
makecdfenv
updated 18.8 years ago by
James W. MacDonald
65k • written 18.8 years ago by
Karin Lagesen
▴ 80
0
votes
1
reply
644
views
makecdfenv makePlatformDesign bigendian
makecdfenv
makePlatformDesign
makecdfenv
makePlatformDesign
updated 18.6 years ago by
Seth Falcon
★ 7.4k • written 18.6 years ago by
Tim Strom
▴ 30
0
votes
3
replies
1.6k
views
unable to install GenomeWideSNP_6 cdf
makecdfenv
bioclite
updated 6.8 years ago by
James W. MacDonald
65k • written 6.8 years ago by
vinaysbharadhwaj
• 0
0
votes
2
replies
1.5k
views
RE:proper pooling design
Microarray
Normalization
affy
makecdfenv
limma
marray
Microarray
Normalization
affy
limma
updated 20.2 years ago by
YUK FAI LEUNG
▴ 140 • written 20.2 years ago by
Stephen Moore
▴ 70
0
votes
3
replies
1.3k
views
Working flow_own CEL file reading problem
Normalization
cdf
affy
makecdfenv
Normalization
cdf
affy
makecdfenv
updated 18.9 years ago by
James W. MacDonald
65k • written 18.9 years ago by
Junshi Yazaki
▴ 40
0
votes
1
reply
973
views
Small bug in function 'countskip.FASTA.entries' from package 'altcdfenvs'
probe
affy
makecdfenv
matchprobes
altcdfenvs
probe
affy
makecdfenv
matchprobes
altcdfenvs
updated 18.4 years ago by
lgautier@altern.org
▴ 950 • written 18.4 years ago by
Norman Pavelka
▴ 190
0
votes
2
replies
1.3k
views
Using Affymetrix PM chips with Bioconductor
Annotation
cdf
probe
makecdfenv
Annotation
cdf
probe
makecdfenv
updated 15.0 years ago by
Ben Bolstad
★ 1.2k • written 15.0 years ago by
James Mcininch
▴ 20
0
votes
2
replies
1.2k
views
affy : ReadAffy() fails on HuGene-1_1-st-v1 chips
Microarray
cdf
affy
makecdfenv
PROcess
oligo
cycle
Microarray
cdf
affy
makecdfenv
oligo
updated 12.2 years ago by
James W. MacDonald
65k • written 12.2 years ago by
Groot, Philip de
▴ 630
0
votes
1
reply
1.2k
views
Trouble in making the cdf package for Arabidopsis?
cdf
probe
makecdfenv
cdf
probe
makecdfenv
updated 21.1 years ago by
Rafael A. Irizarry
▴ 640 • written 21.1 years ago by
Hua Liu
▴ 20
0
votes
1
reply
682
views
Trouble installing 'makecdfenv'
makecdfenv
makecdfenv
updated 20.2 years ago by
rgentleman
★ 5.5k • written 20.2 years ago by
Jim Breaux
▴ 20
0
votes
1
reply
699
views
makecdfenv not installed?
cdf
makecdfenv
cdf
makecdfenv
updated 19.9 years ago by
Jeff Gentry
★ 3.9k • written 19.9 years ago by
Martin Lercher
▴ 10
0
votes
1
reply
1.1k
views
How to create a custom CDF ?
mgu74av2
cdf
probe
affy
makecdfenv
gcrma
mgu74av2
cdf
probe
affy
makecdfenv
gcrma
updated 19.8 years ago by
Ben Bolstad
★ 1.1k • written 19.8 years ago by
Alexander Stoddard
▴ 10
0
votes
1
reply
725
views
makecdfenv
makecdfenv
makecdfenv
updated 19.7 years ago by
James W. MacDonald
65k • written 19.7 years ago by
Lana Schaffer
▴ 80
0
votes
1
reply
1.1k
views
warning from make.cdf.package - FYI
GO
Survival
cdf
Biobase
annotate
genefilter
graph
makecdfenv
limma
gcrma
matchprobes
GO
updated 17.4 years ago by
James W. MacDonald
65k • written 17.4 years ago by
Jenny Drnevich
★ 2.2k
0
votes
1
reply
1.0k
views
making a cdf file for expression analysis on a tiling array
cdf
affy
makecdfenv
cdf
affy
makecdfenv
updated 17.1 years ago by
Sean Davis
21k • written 17.1 years ago by
Ivan Baxter
▴ 60
0
votes
6
replies
1.1k
views
mas5calls with make.cdf.env
cdf
probe
makecdfenv
cdf
probe
makecdfenv
updated 16.8 years ago by
James W. MacDonald
65k • written 16.8 years ago by
Lana Schaffer
★ 1.3k
0
votes
9
replies
1.6k
views
gcrma error? - linked to makeProbePackage ?
cdf
probe
affy
makecdfenv
gcrma
matchprobes
cdf
probe
affy
makecdfenv
gcrma
matchprobes
updated 16.7 years ago by
James W. MacDonald
65k • written 16.7 years ago by
Benoit Ballester
▴ 90
0
votes
1
reply
845
views
error in makecdfenv
makecdfenv
makecdfenv
updated 16.6 years ago by
James W. MacDonald
65k • written 16.6 years ago by
Yan Zhang
▴ 130
0
votes
1
reply
951
views
affyPLM and exon array question
cdf
affy
makecdfenv
affyPLM
cdf
affy
makecdfenv
affyPLM
updated 16.5 years ago by
Ben Bolstad
★ 1.2k • written 16.5 years ago by
Henrik Bengtsson
★ 2.4k
0
votes
5
replies
1.1k
views
makecdfenv and multi-mapping probes on Mouse Gene 1.0 ST array
cdf
probe
makecdfenv
cdf
probe
makecdfenv
updated 15.9 years ago by
Sean Davis
21k • written 15.9 years ago by
Heidi Dvinge
★ 2.0k
0
votes
1
reply
798
views
gcrma problem
cdf
affy
makecdfenv
gcrma
cdf
affy
makecdfenv
gcrma
updated 15.6 years ago by
James W. MacDonald
65k • written 15.6 years ago by
Glyn Bradley
▴ 40
0
votes
1
reply
1.3k
views
Prokaryotic_Rhodobacter capsulatus GEP
Epigenetics
cdf
affy
makecdfenv
plier
affxparser
preprocessCore
Epigenetics
cdf
affy
updated 15.3 years ago by
dorothyc
▴ 140 • written 15.3 years ago by
James W. MacDonald
65k
0
votes
2
replies
1000
views
makecdfenv crashes
cdf
affy
makecdfenv
cdf
affy
makecdfenv
updated 15.3 years ago by
James W. MacDonald
65k • written 15.3 years ago by
Skewes,Aaron
▴ 60
0
votes
2
replies
1.1k
views
Creating Affymetrix CDF files
cdf
probe
makecdfenv
convert
cdf
probe
makecdfenv
convert
updated 15.2 years ago by
Kasper Daniel Hansen
★ 6.5k • written 15.2 years ago by
Mehmet Somel
▴ 20
0
votes
1
reply
1000
views
problem in make.cdf.package of MoGene-1_0-st-v1.r3.CDF
cdf
makecdfenv
cdf
makecdfenv
updated 14.6 years ago by
Benilton Carvalho
★ 4.3k • written 14.6 years ago by
Peng Yu
▴ 940
0
votes
2
replies
1.1k
views
Error message (probably) from AffyBatch.R when using a modified CDF
cdf
affy
makecdfenv
cdf
affy
makecdfenv
updated 11.2 years ago by
James W. MacDonald
65k • written 11.2 years ago by
Hugh Shanahan
▴ 50
0
votes
3
replies
1.3k
views
R crashes when using CDF package generated using makecdfenv
cdf
makecdfenv
cdf
makecdfenv
updated 11.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 11.1 years ago by
Guest User
★ 13k
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 10.0 years ago by
James W. MacDonald
65k • written 10.0 years ago by
Guest User
★ 13k
0
votes
4
replies
1.6k
views
error with makecdfenv package
Annotation
cdf
makecdfenv
oligo
xps
Annotation
cdf
makecdfenv
oligo
xps
updated 9.7 years ago by
cstrato
★ 3.9k • written 9.7 years ago by
James W. MacDonald
65k
2
votes
8
replies
4.0k
views
Clariom D Human Microarray CDF file to package
simpleaffy
makecdfenv
7.6 years ago
jayme.rickman
• 0
0
votes
1
reply
838
views
Fusarium CDF
cdf
makecdfenv
cdf
makecdfenv
updated 17.9 years ago by
James W. MacDonald
65k • written 17.9 years ago by
Heather Erika Hallen
▴ 30
0
votes
2
replies
2.4k
views
Importing CDF file for custom array using makecdfenv
cdf
affy
makecdfenv
cdf
affy
makecdfenv
updated 17.6 years ago by
Michal Okoniewski
▴ 120 • written 17.6 years ago by
Ann Hess
▴ 340
0
votes
1
reply
1.0k
views
new user trying to create a cdf package for custom array
cdf
probe
affy
makecdfenv
cdf
probe
affy
makecdfenv
updated 17.6 years ago by
James W. MacDonald
65k • written 17.6 years ago by
Schwartz, Donald
▴ 20
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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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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
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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
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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…
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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
Answer: error in ChAMP loading file
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