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cancer
•
reset
0
votes
13
replies
1.8k
views
Is a number within a set of ranges?
Cancer
Cancer
16.4 years ago
Daniel Brewer
★ 1.9k
0
votes
9
replies
1.7k
views
Re: Manova nuances
Microarray
Cancer
Microarray
Cancer
20.4 years ago
Baker, Stephen
▴ 160
0
votes
14
replies
3.4k
views
Trimming of partial adaptor sequences
Sequencing
Cancer
Biostrings
Sequencing
Cancer
Biostrings
10.7 years ago
Taylor, Sean D
▴ 250
0
votes
8
replies
1.9k
views
AnnBuilder and Kegg
Pathways
GO
Survival
Cancer
Organism
annotate
affydata
vsn
AnnBuilder
globaltest
GO
vsn
updated 17.4 years ago by
David Lapointe
▴ 190 • written 17.4 years ago by
John Zhang
★ 2.9k
0
votes
13
replies
2.1k
views
statistical test for time course data
Cancer
limma
edgeR
Cancer
limma
edgeR
updated 11.1 years ago by
Gordon Smyth
50k • written 11.2 years ago by
chris Jhon
▴ 260
0
votes
18
replies
1.8k
views
normalization and analysis of connected designs
Normalization
Cancer
Normalization
Cancer
updated 20.7 years ago by
Xavier Solé
▴ 20 • written 20.8 years ago by
Ramon Diaz
★ 1.1k
0
votes
6
replies
1.4k
views
hyperGTest
GO
Cancer
GOstats
Category
GO
Cancer
GOstats
Category
updated 16.9 years ago by
Naomi Altman
★ 6.0k • written 16.9 years ago by
Seth Falcon
★ 7.4k
0
votes
9
replies
1.3k
views
matrix row/column displayed as a list
Cancer
Cancer
updated 17.0 years ago by
Seth Falcon
★ 7.4k • written 17.0 years ago by
Daniel Brewer
★ 1.9k
0
votes
8
replies
1.5k
views
Large # of significant genes with SAM
Cancer
affy
Cancer
affy
updated 18.9 years ago by
Charles Berry
▴ 290 • written 18.9 years ago by
Vincent Detours
▴ 80
0
votes
7
replies
1.4k
views
Gene Ontology relationships
Cancer
GOstats
Cancer
GOstats
updated 16.8 years ago by
Dick Beyer
★ 1.4k • written 16.8 years ago by
Seth Falcon
★ 7.4k
1
vote
5
replies
2.0k
views
Finding differentially expressed genes using Ebayes
Cancer
Cancer
updated 14.9 years ago by
James W. MacDonald
65k • written 14.9 years ago by
John Herbert
▴ 90
0
votes
7
replies
3.1k
views
Visualise KEGG pathway and highlight genes
Cancer
KEGGgraph
Cancer
KEGGgraph
updated 15.0 years ago by
Paolo Sonego
▴ 140 • written 15.0 years ago by
Daniel Brewer
★ 1.9k
0
votes
10
replies
1.9k
views
comparing GO lists
Annotation
GO
Cancer
graph
GOstats
Annotation
GO
Cancer
graph
GOstats
updated 16.7 years ago by
Ana Conesa
▴ 130 • written 16.7 years ago by
rgentleman
★ 5.5k
0
votes
9
replies
1.5k
views
RE: Advice on print-tip normalization
Cancer
probe
marray
oligo
Cancer
probe
marray
oligo
updated 19.5 years ago by
Gene Cutler
▴ 50 • written 19.5 years ago by
Mark Reimers
▴ 70
0
votes
9
replies
1.7k
views
gains and losses via mode shifting
Cancer
CGH
Cancer
CGH
15.8 years ago • updated 15.7 years ago
Oscar Rueda
▴ 60
0
votes
7
replies
1.5k
views
I have trouble running the AnnBuilder Vignette
Cancer
Organism
AnnBuilder
Cancer
Organism
AnnBuilder
updated 19.4 years ago by
James W. MacDonald
65k • written 19.4 years ago by
Richard Friedman
★ 2.0k
0
votes
10
replies
1.6k
views
exonmap RMA function
Microarray
Cancer
affyPLM
exonmap
Microarray
Cancer
affyPLM
exonmap
updated 16.2 years ago by
Yuan Jian
▴ 250 • written 16.2 years ago by
Martin Morgan
25k
0
votes
5
replies
1.6k
views
biomaRt/RMySQL installation help
Cancer
biomaRt
Cancer
biomaRt
updated 18.6 years ago by
Seth Falcon
★ 7.4k • written 18.6 years ago by
Jane Fridlyand
▴ 90
0
votes
10
replies
1.8k
views
AgiMicroRNA and Extra columns in Agilent Mouse miRNA Microarray Release 12.0 G4471A-021828.
miRNA
Microarray
Cancer
microRNA
miRNA
Microarray
Cancer
microRNA
13.8 years ago
Neel Aluru
▴ 460
0
votes
10
replies
1.9k
views
Some Genefilter questions
Normalization
Survival
Cancer
cdf
genefilter
geneplotter
affy
affydata
widgetTools
gcrma
updated 17.3 years ago by
Amy Mikhail
▴ 460 • written 17.3 years ago by
David K Pritchard
▴ 70
0
votes
5
replies
1.2k
views
A question about the function readGAlignmentPairs in GenomicRnages package
Cancer
Cancer
10.0 years ago
Hervé Pagès
16k
0
votes
5
replies
1.2k
views
homology package question
Microarray
Cancer
Microarray
Cancer
updated 17.0 years ago by
John Zhang
★ 2.9k • written 17.0 years ago by
James W. MacDonald
65k
0
votes
5
replies
3.1k
views
overlap regions between two GRanges (or GRangesList)
Cancer
Cancer
updated 10.0 years ago by
Shanrong Zhao
▴ 20 • written 10.0 years ago by
Hervé Pagès
16k
0
votes
5
replies
2.1k
views
DESeq and paired samples - pairing vs pooling
Cancer
DESeq
Cancer
DESeq
updated 12.8 years ago by
Gordon Smyth
50k • written 12.9 years ago by
Timothy Hughes
▴ 20
0
votes
14
replies
2.6k
views
RBGL 1.8.1 installation error on linux
Cancer
graph
RBGL
Cancer
graph
RBGL
updated 17.8 years ago by
Li.Long@isb-sib.ch
▴ 510 • written 17.9 years ago by
Johannes Rainer
▴ 300
0
votes
5
replies
1.5k
views
Best options for cross validation machine learning
Microarray
Clustering
Cancer
Microarray
Clustering
Cancer
updated 14.2 years ago by
Joern Toedling
▴ 450 • written 14.2 years ago by
Daniel Brewer
★ 1.9k
0
votes
5
replies
1.5k
views
Software to find the area of a shape in an image
Cancer
Cancer
updated 14.7 years ago by
Jordi Altirriba Gutiérrez
▴ 350 • written 14.7 years ago by
Daniel Brewer
★ 1.9k
0
votes
5
replies
1.5k
views
Errors using biocLite on Apple OS X
GUI
Cancer
Breast
Biobase
GUI
Cancer
Breast
Biobase
17.7 years ago
Steven McKinney
▴ 310
0
votes
8
replies
1.6k
views
ChIPpeakAnno Strandedness and distance calculation
Annotation
Cancer
ChIPpeakAnno
Annotation
Cancer
ChIPpeakAnno
updated 13.9 years ago by
Dario Strbenac
★ 1.5k • written 13.9 years ago by
Julie Zhu
★ 4.3k
0
votes
4
replies
1.2k
views
How do you keep track of your analyses
Cancer
Cancer
updated 15.5 years ago by
Bio Sam
▴ 60 • written 15.5 years ago by
Daniel Brewer
★ 1.9k
0
votes
6
replies
1.6k
views
RE: RMA normalization
Normalization
Cancer
Normalization
Cancer
updated 19.5 years ago by
Wolfgang Huber
★ 13k • written 19.5 years ago by
Mark Reimers
▴ 70
0
votes
3
replies
1.5k
views
PCA plots
Cancer
Cancer
updated 21.2 years ago by
rgentleman
★ 5.5k • written 21.2 years ago by
Michael Benjamin
▴ 120
0
votes
4
replies
2.1k
views
biomaRt get exon intron structure of a transcrit
Cancer
biomaRt
Cancer
biomaRt
15.4 years ago
Shi, Tao
▴ 720
0
votes
3
replies
1.6k
views
RE: quantile normalization
Normalization
Cancer
PROcess
Normalization
Cancer
PROcess
updated 19.6 years ago by
H. Han
▴ 30 • written 19.6 years ago by
Mark Reimers
▴ 70
0
votes
4
replies
1.3k
views
GOstats: another problem
GO
Cancer
GO
Cancer
19.7 years ago
John Zhang
★ 2.9k
0
votes
4
replies
1.2k
views
Removing libraries or using a particular function
Cancer
DNAcopy
Cancer
DNAcopy
updated 16.7 years ago by
Seth Falcon
★ 7.4k • written 16.7 years ago by
Daniel Brewer
★ 1.9k
0
votes
6
replies
1.2k
views
install Monograph problem
Cancer
widgetTools
Cancer
widgetTools
16.9 years ago
Seth Falcon
★ 7.4k
0
votes
3
replies
1.4k
views
AnnBuilder/ABPkgBuilder: lots of Errors
Annotation
GO
Cancer
Organism
Biobase
annotate
AnnBuilder
PROcess
bridge
Annotation
GO
updated 19.6 years ago by
John Zhang
★ 2.9k • written 19.6 years ago by
Floor Stam
▴ 90
0
votes
4
replies
1.2k
views
GOstats locked database
GO
Cancer
GOstats
GO
Cancer
GOstats
16.2 years ago
Janet Young
▴ 740
0
votes
3
replies
2.0k
views
gene expression data followup
Survival
Cancer
Survival
Cancer
updated 15.4 years ago by
James W. MacDonald
65k • written 15.4 years ago by
Adrian Johnson
▴ 330
0
votes
3
replies
2.4k
views
Reading in data with HTqPCR
Cancer
cycle
Cancer
cycle
updated 13.8 years ago by
deepak roshan
▴ 40 • written 13.8 years ago by
Heidi Dvinge
★ 2.0k
0
votes
3
replies
1.7k
views
"scale to fit" plot for A4 pdf
Cancer
a4
Cancer
a4
updated 17.0 years ago by
James W. MacDonald
65k • written 17.0 years ago by
Daniel Brewer
★ 1.9k
0
votes
6
replies
1.2k
views
matrix row/column displayed as a list
Cancer
Cancer
updated 17.0 years ago by
Seth Falcon
★ 7.4k • written 17.0 years ago by
Daniel Brewer
★ 1.9k
0
votes
4
replies
10k
views
Correlation matrix and pca on matrix with NA values
Cancer
Cancer
updated 17.0 years ago by
Aedin Culhane
▴ 510 • written 17.0 years ago by
Daniel Brewer
★ 1.9k
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
0
votes
4
replies
1.4k
views
Re: technical replicates (again!): a summary
Microarray
GO
Cancer
vsn
Microarray
GO
Cancer
vsn
updated 20.0 years ago by
Ramon Diaz
★ 1.1k • written 20.0 years ago by
Gordon Smyth
50k
0
votes
5
replies
1.8k
views
RMA and justRMA error
Cancer
cdf
Biobase
affy
gcrma
affyio
Cancer
cdf
Biobase
affy
gcrma
affyio
17.6 years ago
Aedin Culhane
▴ 510
0
votes
7
replies
1.4k
views
M vs A plot
Microarray
Normalization
Regression
Cancer
marray
Microarray
Normalization
Regression
updated 20.1 years ago by
Naomi Altman
★ 6.0k • written 20.1 years ago by
Richard Friedman
★ 2.0k
0
votes
5
replies
1.5k
views
Display of histogram of RMA-processed data
Cancer
Cancer
19.9 years ago
Richard Friedman
★ 2.0k
0
votes
8
replies
1.8k
views
raw probe set expression data and masking questions
Normalization
Cancer
probe
affy
PROcess
Normalization
Cancer
probe
affy
PROcess
updated 7.0 years ago by
jacorvar
▴ 40 • written 17.6 years ago by
Schwartz, Donald
▴ 20
50 results • Page
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Replies
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
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
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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