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Views
Votes
0
votes
0
replies
925
views
how to deal with technical replicates in Limma?
limma
limma
18.4 years ago
Lana Teixeira Fernandes
▴ 10
0
votes
0
replies
1.3k
views
Does anyone have the same problem with new("ExpressionSet", ...) ?
Annotation
Biobase
Annotation
Biobase
18.4 years ago
Martin Morgan
25k
0
votes
0
replies
636
views
Bioconductor Digest, Vol 55, Issue 3
18.4 years ago
Yaping Cheng
▴ 20
0
votes
0
replies
745
views
hgu95a probe co-ordinates in May 2004 assembly
Cancer
hgu95a
affy
Cancer
hgu95a
affy
18.4 years ago
Janet Young
▴ 740
0
votes
0
replies
1.1k
views
Does anyone have the same problem with new("ExpressionSet", ...) ?
Annotation
Biobase
Annotation
Biobase
18.4 years ago
Wolfgang Huber
★ 13k
0
votes
2
replies
4.2k
views
p.adjust returns one uniform value
updated 18.4 years ago by
Jenny Drnevich
★ 2.2k • written 18.4 years ago by
Benjamin Otto
▴ 830
0
votes
0
replies
713
views
Does anyone have the same problem with new("ExpressionSet", ...) ?
Cancer
Biobase
Cancer
Biobase
18.4 years ago
Seth Falcon
★ 7.4k
0
votes
2
replies
952
views
small sample size,microarray, cross-validation
updated 18.4 years ago by
William Shannon
▴ 280 • written 18.4 years ago by
martin.schumacher@novartis.com
▴ 80
0
votes
0
replies
760
views
A big change for Seth
Cancer
Cancer
18.4 years ago
Seth Falcon
★ 7.4k
0
votes
0
replies
509
views
Multivariate analysis and Simplicate points
18.4 years ago
John Lande
▴ 280
0
votes
1
reply
549
views
question on buildChromLocation
updated 18.4 years ago by
Martin Morgan
25k • written 18.4 years ago by
Alessandro Fazio
▴ 70
0
votes
3
replies
1.1k
views
Receive your own posts to the list
updated 18.4 years ago by
STKH Steen Krogsgaard
▴ 150 • written 18.4 years ago by
Pedro López Romero
▴ 360
0
votes
3
replies
2.7k
views
ReadAffy Error
Annotation
ExperimentData
cdf
affy
affyio
Annotation
ExperimentData
cdf
affy
affyio
updated 18.4 years ago by
Sylvia.Merk@ukmuenster.de
▴ 60 • written 18.4 years ago by
Markus Schmidberger
▴ 380
0
votes
0
replies
580
views
aCGh data analysis and new journal
18.4 years ago
William Shannon
▴ 280
0
votes
0
replies
802
views
topTable changes
18.4 years ago
Gordon Smyth
53k
0
votes
0
replies
1.8k
views
Fwd: Re: einem schnellen One- Night- Stand- Ficken ( Grund)
18.4 years ago
marginal3617@indiatimes.com
▴ 10
0
votes
0
replies
838
views
Analysis of many Flagged spots
18.4 years ago
Davide Valentini
▴ 40
0
votes
1
reply
937
views
topTable changes
updated 18.4 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.4 years ago by
Sue Jones
▴ 40
0
votes
1
reply
741
views
affylmGUI: options for 'Export HTML Report'?
Genetics
Genetics
updated 18.4 years ago by
Keith Satterley
▴ 450 • written 18.4 years ago by
Peter Andrews
▴ 10
0
votes
0
replies
316
views
Hilfe für den kleinen Marcel
18.4 years ago
Marketing 1A
▴ 10
0
votes
0
replies
548
views
small sample size,microarray, cross-validation
18.4 years ago
Roger Liu
▴ 260
0
votes
3
replies
2.3k
views
getGEO invalid multibyte string
updated 18.4 years ago by
Martin Morgan
25k • written 18.4 years ago by
Tobias Straub
▴ 430
0
votes
1
reply
851
views
AnnBuilder and ftp problems
updated 18.4 years ago by
Martin Morgan
25k • written 18.4 years ago by
Pedro López Romero
▴ 360
0
votes
2
replies
704
views
getBioC and local repositories
updated 18.4 years ago by
Seth Falcon
★ 7.4k • written 18.4 years ago by
mark garey
▴ 20
0
votes
1
reply
554
views
Lumi: Something odd about detectionTh?
18.4 years ago
Ingrid H. G. Østensen
▴ 700
0
votes
0
replies
736
views
7 Courses: Upcoming September-October 2007 R/S+ schedule by XLSolutions Corp
18.4 years ago
sue@xlsolutions-corp.com
▴ 570
0
votes
1
reply
910
views
Bioconductor, naming of functions
updated 18.4 years ago by
Martin Morgan
25k • written 18.4 years ago by
Markus Schmidberger
▴ 380
0
votes
0
replies
839
views
marrayRaw class using read.Agilent function
probe
probe
18.4 years ago
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
5
replies
2.3k
views
Measuring similarities beween GO terms graphs
Annotation
GO
GOstats
Annotation
GO
GOstats
updated 18.4 years ago by
prsmra01@uniroma2.it
▴ 50 • written 18.4 years ago by
raffaele calogero
▴ 500
0
votes
0
replies
815
views
Loess Normalization vs. Dye-Swap Normalization
Normalization
affy
Normalization
affy
18.4 years ago
Ulisses M. Braga-Neto
▴ 10
0
votes
1
reply
591
views
biomaRt question
updated 18.4 years ago by
Steffen
▴ 500 • written 18.4 years ago by
Zhu, Dongxiao
▴ 40
0
votes
1
reply
868
views
ontoCompare - 1) notFound 2) GO level
updated 18.4 years ago by
Paquet, Agnes
▴ 500 • written 18.4 years ago by
Michaela Gündel
▴ 50
0
votes
0
replies
885
views
Schedule for BioC 2.1 release
Cancer
Cancer
18.4 years ago
Seth Falcon
★ 7.4k
0
votes
4
replies
1.8k
views
problems rma() with mouse exon affy data in exonmap package
Survival
cdf
genefilter
affy
simpleaffy
plier
exonmap
Survival
cdf
genefilter
affy
updated 18.4 years ago by
James W. MacDonald
68k • written 18.4 years ago by
bruce
▴ 20
0
votes
10
replies
2.3k
views
Lumi warning and question
18.4 years ago
Ingrid H. G. Østensen
▴ 700
0
votes
2
replies
839
views
how to convert gene identifier to symbol?
updated 18.4 years ago by
Martin Morgan
25k • written 18.4 years ago by
catherine xu
▴ 10
0
votes
1
reply
1.4k
views
Exonmap mapping problems
Survival
genefilter
affy
plier
affyio
exonmap
Survival
genefilter
affy
plier
affyio
updated 18.4 years ago by
Michal Okoniewski
▴ 120 • written 18.4 years ago by
Tore Eriksson
▴ 10
0
votes
3
replies
987
views
topTable
updated 18.4 years ago by
Jenny Drnevich
★ 2.2k • written 18.4 years ago by
Lev Soinov
▴ 470
0
votes
2
replies
553
views
Question about changes in package Ringo
updated 18.4 years ago by
Seth Falcon
★ 7.4k • written 18.4 years ago by
PT Bote
▴ 10
0
votes
1
reply
531
views
write to stderr
updated 18.4 years ago by
Martin Morgan
25k • written 18.4 years ago by
carol white
▴ 680
0
votes
1
reply
1.3k
views
RNA degradation for Illumina
affy
beadarray
lumi
affy
beadarray
lumi
updated 18.4 years ago by
Wei Shi
★ 3.6k • written 18.4 years ago by
Ina Hoeschele
▴ 110
0
votes
1
reply
439
views
Question about topTableF
updated 18.4 years ago by
James W. MacDonald
68k • written 18.4 years ago by
José Manuel Otero
▴ 10
0
votes
1
reply
1.4k
views
Question about inconsistent gene expression
Microarray
Cancer
hgu133plus2
probe
affy
limma
gcrma
Microarray
Cancer
hgu133plus2
probe
updated 18.4 years ago by
Michal Okoniewski
▴ 120 • written 18.4 years ago by
Chunyan Liu
▴ 40
0
votes
0
replies
775
views
limma design
18.4 years ago
Aurelie Laugraud
▴ 10
0
votes
8
replies
1.5k
views
Which genes are in the GO count column?
18.4 years ago
Ingrid H. G. Østensen
▴ 700
0
votes
6
replies
3.0k
views
Illumina bead arrays
beadarray
beadarray
updated 18.4 years ago by
Mike Smith
▴ 40 • written 18.5 years ago by
Ina Hoeschele
▴ 110
0
votes
4
replies
3.6k
views
problem installing the affy package
18.4 years ago
Martin O'Gorman
▴ 20
0
votes
0
replies
681
views
Charity Project
Cancer
Cancer
18.4 years ago
faith King
▴ 10
0
votes
1
reply
1.0k
views
OMIM and annaffy
affy
annaffy
affy
annaffy
updated 18.4 years ago by
James W. MacDonald
68k • written 18.4 years ago by
Mayte Suarez-Farinas
▴ 510
0
votes
1
reply
1.0k
views
goTools: ontoCompare - GO list
GO
PROcess
GO
PROcess
updated 18.4 years ago by
Paquet, Agnes
▴ 500 • written 18.4 years ago by
Christelle Dantec
▴ 20
46,730 results • Page
780 of 935
Recent ...
Replies
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
• 0
Confirming my understanding after executing the code provided: this is similar to a design formula of `~0+mouse+group+group:allele`, except…
Comment: Combining two proteomics datasets with limpa
by
Andrew Pattison
• 0
Thanks heaps Gordon. I went with option 1 and no normalisation and all seems to have worked well. Cheers, Andrew
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
Flagging protein groups as likely contaminants in this way will be fine for a limpa analysis. The `Cont_` proteins can optionally stay in f…
Answer: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Gordon Smyth
53k
Aaron Lun was a PhD student in my Lab back in 2015, when he posted the answers about allele-specific expression that you and Mike Love have…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Michael Love
43k
You just need the mouse identifier (controls baseline) and the group specific allelic effect.
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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