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Showing :
probe
•
reset
0
votes
12
replies
2.2k
views
how deal with multiplicate affy probes?
mgu74av2
probe
affy
mgu74av2
probe
affy
updated 20.1 years ago by
Ron Ophir
▴ 80 • written 20.1 years ago by
Johnnidis, Jonathan
▴ 50
0
votes
8
replies
1.9k
views
Biological replication (was RNA degradation problem)
Normalization
probe
affy
affyPLM
Normalization
probe
affy
affyPLM
18.3 years ago
Naomi Altman
★ 6.0k
0
votes
7
replies
2.0k
views
analyzing HumanHT12 with lumi
Microarray
Normalization
probe
lumi
Microarray
Normalization
probe
lumi
updated 14.7 years ago by
die_stevie@web.de
▴ 50 • written 14.7 years ago by
Stefanie Figura
▴ 30
0
votes
12
replies
2.7k
views
Does the strand of a microarray probe matter?
probe
probe
updated 15.5 years ago by
MARIA STALTERI
▴ 160 • written 15.5 years ago by
Cei Abreu-Goodger
▴ 830
0
votes
5
replies
1.3k
views
Subsetting data from RGList (Again)
probe
probe
16.5 years ago
elliot harrison
▴ 230
0
votes
10
replies
1.7k
views
AnnBuilder doesn't work on gene information ("GENENAME", "SYMBOL", etc)
Microarray
Annotation
probe
annotate
affy
AnnBuilder
Microarray
Annotation
probe
annotate
updated 17.8 years ago by
John Zhang
★ 2.9k • written 17.8 years ago by
Luo Weijun
★ 1.6k
0
votes
13
replies
2.0k
views
Invalid fold-filter
probe
affy
probe
affy
updated 18.2 years ago by
Stephen Henderson
★ 1.0k • written 18.2 years ago by
Bornman, Daniel M
▴ 110
0
votes
5
replies
1.4k
views
single color microarray analysis
Microarray
Normalization
probe
affy
limma
Microarray
Normalization
probe
affy
limma
updated 19.2 years ago by
Gordon Smyth
50k • written 19.2 years ago by
zhihua li
▴ 120
0
votes
8
replies
1.5k
views
Help with HyperGTest
Annotation
probe
GOstats
Annotation
probe
GOstats
14.5 years ago
Yue, Chen - BMD
▴ 60
0
votes
5
replies
1.3k
views
Annotation of Affymetrix hgu133plus2 chip
Annotation
hgu133plus2
probe
Annotation
hgu133plus2
probe
updated 19.7 years ago by
rgentleman
★ 5.5k • written 19.7 years ago by
Dipl.-Ing. Johannes Rainer
▴ 430
0
votes
9
replies
1.7k
views
metadata - annotation package changes
Annotation
moe430a
probe
Annotation
moe430a
probe
updated 18.8 years ago by
John Zhang
★ 2.9k • written 18.8 years ago by
MARIA STALTERI
▴ 160
0
votes
4
replies
1.3k
views
probe --> probe set mapping in CDF library files
cdf
probe
altcdfenvs
cdf
probe
altcdfenvs
18.0 years ago
michael driscoll
▴ 30
0
votes
5
replies
1.2k
views
M vs A plots of affymetrix data
probe
probe
18.2 years ago
michael watson IAH-C
★ 3.4k
0
votes
7
replies
1.7k
views
annaffy annotation problem (hgu133plus2)
Annotation
hgu133plus2
probe
annotate
AnnBuilder
Annotation
hgu133plus2
probe
annotate
updated 19.1 years ago by
Glynn, Earl
▴ 170 • written 19.1 years ago by
Dipl.-Ing. Johannes Rainer
▴ 430
0
votes
6
replies
1.3k
views
problems using simpleaffy
probe
simpleaffy
probe
simpleaffy
updated 19.1 years ago by
Seth Falcon
★ 7.4k • written 19.1 years ago by
Georg Otto
▴ 510
0
votes
9
replies
2.0k
views
AgiMicroRna - FilterMicroRna question
probe
probe
13.9 years ago
Neel Aluru
▴ 460
0
votes
4
replies
1.1k
views
combineAffyBatch for HG-U133A and HG-U133Av2 GeneChips
probe
matchprobes
probe
matchprobes
updated 19.5 years ago by
Wolfgang Huber
★ 13k • written 19.6 years ago by
Kellie J. Archer, Ph.D.
▴ 120
0
votes
4
replies
1.5k
views
Positive correlation between dye-swap technical replicates
Normalization
Clustering
probe
limma
GLAD
Normalization
Clustering
probe
limma
GLAD
14.3 years ago
Michał Góralski
▴ 40
0
votes
4
replies
1.6k
views
Summarizing two-channel data (RGList, MAList) for limma analysis
Normalization
probe
affy
Normalization
probe
affy
updated 12.3 years ago by
Daniel Aaen Hansen
▴ 90 • written 12.3 years ago by
Stephen Turner
▴ 290
0
votes
4
replies
1.2k
views
Problems with Hu6800 and GCRMA...
Microarray
hu6800
probe
gcrma
Microarray
hu6800
probe
gcrma
20.2 years ago
Stiles, David NIH/NIDDK
▴ 50
0
votes
5
replies
1.5k
views
PLIER affinities redux
cdf
probe
Biobase
affy
plier
cdf
probe
Biobase
affy
plier
updated 18.6 years ago by
Crispin Miller
★ 1.1k • written 18.6 years ago by
Jeremy Gollub
▴ 60
0
votes
4
replies
1.1k
views
Recent changes to Bioconductor packages
probe
probe
19.8 years ago • updated 19.7 years ago
madman@jimmy.harvard.edu
▴ 850
0
votes
9
replies
1.6k
views
RE: Advice on print-tip normalization
Cancer
probe
marray
oligo
Cancer
probe
marray
oligo
updated 19.6 years ago by
Gene Cutler
▴ 50 • written 19.6 years ago by
Mark Reimers
▴ 70
0
votes
7
replies
1.9k
views
ragene10st
Annotation
GO
Rattus norvegicus
ChipName
cdf
probe
affy
AnnotationDbi
AffyCompatible
GO
updated 15.2 years ago by
Groot, Philip de
▴ 630 • written 15.2 years ago by
Sebastien Gerega
▴ 370
0
votes
6
replies
1.4k
views
question regarding removing probes/probe sets before normalization
cdf
probe
cdf
probe
13.7 years ago
Jenny Drnevich
★ 2.0k
0
votes
6
replies
1.4k
views
biomart scripting help
probe
affy
probe
affy
updated 17.5 years ago by
Ariel Chernomoretz
▴ 380 • written 17.5 years ago by
marco fabbri
▴ 320
0
votes
3
replies
1.1k
views
memory usage ReadAffy() and probe level information
probe
affy
probe
affy
updated 20.1 years ago by
Tan, MinHan
▴ 180 • written 20.1 years ago by
Roel Verhaak
▴ 70
0
votes
3
replies
1.3k
views
limma and nested factors
probe
affy
limma
probe
affy
limma
20.1 years ago
Arne.Muller@aventis.com
▴ 620
0
votes
6
replies
966
views
probe level annotation
probe
probe
17.6 years ago
Shi, Tao
▴ 720
0
votes
14
replies
1.9k
views
from rat codelink to human locuslink
probe
probe
updated 17.5 years ago by
Steffen Durinck
▴ 580 • written 17.5 years ago by
Weiwei Shi
★ 1.2k
0
votes
8
replies
1.4k
views
outlier removal from gene chip
probe
probe
updated 17.6 years ago by
Fangxin Hong
▴ 810 • written 17.6 years ago by
Weiwei Shi
★ 1.2k
0
votes
3
replies
1.3k
views
webbioc chicken
Microarray
cdf
probe
multtest
affy
webbioc
Microarray
cdf
probe
multtest
affy
webbioc
updated 17.2 years ago by
Nianhua Li
▴ 870 • written 17.2 years ago by
jane janes
▴ 20
0
votes
7
replies
1.6k
views
annotation package for chicken affyprobes
Annotation
Organism
Gallus gallus
probe
AnnBuilder
Annotation
Organism
Gallus gallus
probe
updated 17.7 years ago by
Lina Hultin-Rosenberg
▴ 180 • written 17.7 years ago by
Nianhua Li
▴ 870
0
votes
8
replies
1.9k
views
raw probe set expression data and masking questions
Normalization
Cancer
probe
affy
PROcess
Normalization
Cancer
probe
affy
PROcess
updated 7.1 years ago by
jacorvar
▴ 40 • written 17.7 years ago by
Schwartz, Donald
▴ 20
0
votes
5
replies
2.6k
views
Issues about how to filter and annotate the MoGene-2_0-st and MoEx-1_0-st-v1 array probe sets
Annotation
probe
annotate
annaffy
oligo
ReportingTools
Annotation
probe
annotate
annaffy
updated 9.9 years ago by
Jason Hackney
▴ 160 • written 9.9 years ago by
James W. MacDonald
65k
0
votes
12
replies
2.1k
views
RMA-bimodality:
Normalization
probe
Normalization
probe
updated 17.9 years ago by
Phguardiol@aol.com
▴ 720 • written 17.9 years ago by
noel0925@sbcglobal.net
▴ 90
0
votes
5
replies
1.9k
views
biomaRt error in getGene
probe
biomaRt
probe
biomaRt
17.8 years ago
Georg Otto
▴ 510
0
votes
11
replies
2.1k
views
globaltest question
Pathways
probe
affy
Pathways
probe
affy
written 17.7 years ago by
mike Ad.
▴ 30
0
votes
5
replies
2.0k
views
GOstats, geneCounts and gene universe filtering...
GO
rat2302
probe
GOstats
topGO
GO
rat2302
probe
GOstats
topGO
updated 17.0 years ago by
Seth Falcon
★ 7.4k • written 17.0 years ago by
Jesper Ryge
▴ 110
0
votes
3
replies
1.3k
views
package xps: export.filter issues
Annotation
probe
xps
Annotation
probe
xps
updated 11.7 years ago by
cstrato
★ 3.9k • written 11.7 years ago by
steven wink
▴ 90
0
votes
4
replies
1.3k
views
Annotation Questions
Microarray
GO
probe
AnnBuilder
Microarray
GO
probe
AnnBuilder
updated 20.4 years ago by
John Zhang
★ 2.9k • written 20.4 years ago by
Law, Annie
▴ 70
0
votes
3
replies
747
views
conditional selection: extracting row from matrix
probe
probe
updated 20.3 years ago by
Wolfgang Huber
★ 13k • written 20.3 years ago by
Straubhaar, Juerg
▴ 300
0
votes
8
replies
1.4k
views
limma topTable question
probe
limma
probe
limma
updated 19.1 years ago by
Jenny Bryan
▴ 110 • written 19.1 years ago by
Cyrus Harmon
▴ 140
0
votes
8
replies
1.5k
views
Tiling array application
probe
affy
gcrma
probe
affy
gcrma
19.1 years ago
Shinhan Shiu
▴ 60
0
votes
8
replies
1.6k
views
questions about altcdfenv
GO
yeast2
cdf
probe
GO
yeast2
cdf
probe
updated 15.6 years ago by
Jenny Drnevich
★ 2.0k • written 15.6 years ago by
Hui-Yi Chu
▴ 160
0
votes
3
replies
1.3k
views
qc.stats error with mgu74av2
mgu74av2
probe
simpleaffy
mgu74av2
probe
simpleaffy
updated 20.3 years ago by
Crispin Miller
★ 1.1k • written 20.3 years ago by
Dick Beyer
★ 1.4k
0
votes
3
replies
1.4k
views
installing affy environment
mgu74av2
cdf
probe
affy
mgu74av2
cdf
probe
affy
20.7 years ago
Straubhaar, Juerg
▴ 300
0
votes
3
replies
1.0k
views
gcrma problem
Microarray
Cancer
probe
gcrma
ASSIGN
Microarray
Cancer
probe
gcrma
ASSIGN
updated 19.1 years ago by
James W. MacDonald
65k • written 19.1 years ago by
Wenqiong Chen
▴ 120
0
votes
4
replies
1.3k
views
error with results.summary in simpleaffy
Annotation
Cancer
hgu133a
probe
simpleaffy
Annotation
Cancer
hgu133a
probe
simpleaffy
updated 18.8 years ago by
MARIA STALTERI
▴ 160 • written 18.9 years ago by
Crispin Miller
★ 1.1k
0
votes
3
replies
795
views
how to separate probe numbers from AffyIDs?
probe
probe
updated 20.8 years ago by
Marcus Davy
▴ 680 • written 20.8 years ago by
Jenny Drnevich
★ 2.2k
50 results • Page
1 of 1
Recent ...
Replies
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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