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Pathways
•
reset
0
votes
0
replies
1.1k
views
KEGGgraph ??
Pathways
GO
GOstats
keggorth
KEGGgraph
Pathways
GO
GOstats
keggorth
KEGGgraph
17.1 years ago
Paul Evans
▴ 180
0
votes
2
replies
1.2k
views
reasonable Illumina hyperG test
Pathways
lumi
Pathways
lumi
updated 17.2 years ago by
James W. MacDonald
68k • written 17.2 years ago by
Sebastien Gerega
▴ 370
0
votes
2
replies
1.7k
views
GO over representation analysis
Annotation
Pathways
GO
Organism
db0
AnnBuilder
PROcess
maanova
AnnotationDbi
Annotation
updated 17.2 years ago by
Kort, Eric
▴ 220 • written 17.2 years ago by
Marc Carlson
★ 7.2k
0
votes
8
replies
2.3k
views
Filtering gene list prior to statistical testing
Pathways
Pathways
updated 17.4 years ago by
rgentleman
★ 5.5k • written 17.4 years ago by
Johan van Heerden
▴ 40
0
votes
5
replies
3.4k
views
Help using ENSMUSG ids in GOstats
Microarray
Pathways
GOstats
Microarray
Pathways
GOstats
updated 17.5 years ago by
rgentleman
★ 5.5k • written 17.5 years ago by
John Reid
▴ 30
0
votes
0
replies
1.9k
views
BIRD 2008 Conference Call for papers
Genetics
Pathways
Cancer
microRNA
Genetics
Pathways
Cancer
microRNA
17.9 years ago
Prof. Roland Wagner
▴ 100
0
votes
0
replies
1.8k
views
BIRD 2008
Genetics
Pathways
Cancer
microRNA
Genetics
Pathways
Cancer
microRNA
17.9 years ago
Prof. Roland Wagner
▴ 100
0
votes
0
replies
1.9k
views
BIRD 2008 Conference
Genetics
Pathways
Cancer
microRNA
Genetics
Pathways
Cancer
microRNA
17.9 years ago
Prof. Roland Wagner
▴ 100
0
votes
5
replies
2.9k
views
GSEA and Broad gene sets
Pathways
GSEABase
Pathways
GSEABase
updated 18.0 years ago by
Weiwei Shi
★ 1.2k • written 18.0 years ago by
Brian Hare
▴ 30
0
votes
1
reply
3.2k
views
BIRD 2008
Genetics
Pathways
Cancer
PROcess
microRNA
a4
Genetics
Pathways
Cancer
PROcess
microRNA
18.0 years ago
Prof. Roland Wagner
▴ 100
0
votes
2
replies
1.4k
views
KEGG pathway
Pathways
Pathways
updated 18.2 years ago by
Marc Carlson
★ 7.2k • written 18.2 years ago by
Yihuan Xu
▴ 130
0
votes
2
replies
1.3k
views
stat/math question on Category vignette
Pathways
Category
Pathways
Category
updated 18.2 years ago by
Seth Falcon
★ 7.4k • written 18.2 years ago by
Kimpel, Mark W
▴ 890
0
votes
1
reply
1.4k
views
KEGGSOAP: color.pathway.by.objects
Pathways
KEGGSOAP
Pathways
KEGGSOAP
updated 18.2 years ago by
John Zhang
★ 2.9k • written 18.2 years ago by
Alexander C Cambon
▴ 30
0
votes
2
replies
1.8k
views
KEGG package
Pathways
Pathways
updated 18.3 years ago by
John Zhang
★ 2.9k • written 18.3 years ago by
Yihuan Xu
▴ 130
0
votes
1
reply
1.3k
views
html report of hyperGTest question
Pathways
GO
Pathways
GO
updated 18.3 years ago by
Seth Falcon
★ 7.4k • written 18.3 years ago by
Siarhei Manakou
▴ 100
0
votes
0
replies
1.1k
views
The above Feelgood Formula enshrines the common philosophy that the better you treat people, the better they will work.
Pathways
PROcess
BRAIN
Pathways
PROcess
BRAIN
18.4 years ago
Neddy
▴ 10
0
votes
0
replies
1.1k
views
PFAM annotation from HyperG
Pathways
annotate
Category
Pathways
annotate
Category
18.4 years ago
Dario Greco
▴ 310
0
votes
0
replies
857
views
how to find the children identifiers of a specific KEGGidentifier in R??
Microarray
Annotation
Pathways
GO
Microarray
Annotation
Pathways
GO
18.5 years ago
Francois Pepin
★ 1.3k
0
votes
3
replies
2.4k
views
hyperGTest, KEGG
Annotation
Pathways
multtest
siggenes
RBGL
GOstats
Annotation
Pathways
multtest
siggenes
updated 18.6 years ago by
Seth Falcon
★ 7.4k • written 18.6 years ago by
ivan.borozan@utoronto.ca
▴ 80
0
votes
1
reply
1.3k
views
globaltest
Pathways
globaltest
Pathways
globaltest
updated 18.7 years ago by
Oosting, J. PATH
▴ 550 • written 18.7 years ago by
Caroline Reiff
▴ 40
0
votes
0
replies
1.2k
views
in case you have a visualization paper to submit
Microarray
Alignment
Pathways
Visualization
Microarray
Alignment
Pathways
Visualization
18.7 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
0
replies
1.4k
views
Undergraduate Student Project Summer 2007, at EBI: the synapse and the brain
Pathways
BRAIN
Pathways
BRAIN
18.7 years ago
Wolfgang Huber
★ 13k
0
votes
0
replies
1.1k
views
BIRD 07 call for particpation
Pathways
microRNA
Pathways
microRNA
19.0 years ago
Prof.Roland Wagner
▴ 60
0
votes
0
replies
1.0k
views
KEGGSOAP Question: get.pathways.by.compounds
Pathways
KEGGSOAP
Pathways
KEGGSOAP
19.0 years ago
Nianhua Li
▴ 870
0
votes
8
replies
2.7k
views
AnnBuilder and Kegg
Pathways
GO
Survival
Cancer
Organism
annotate
affydata
vsn
AnnBuilder
globaltest
GO
vsn
updated 19.0 years ago by
David Lapointe
▴ 190 • written 19.0 years ago by
John Zhang
★ 2.9k
0
votes
6
replies
2.7k
views
GOstats and KEGG
Pathways
GO
GOstats
Pathways
GO
GOstats
updated 19.0 years ago by
Seth Falcon
★ 7.4k • written 19.0 years ago by
Morten Mattingsdal
▴ 190
0
votes
0
replies
1.3k
views
BIRD: New paper and submission deadline: September 22
Pathways
microRNA
Pathways
microRNA
19.2 years ago
Prof.Roland Wagner
▴ 60
0
votes
1
reply
888
views
drosphila2PATH question
Pathways
affy
Pathways
affy
updated 19.2 years ago by
Nianhua Li
▴ 870 • written 19.2 years ago by
Ariel Chernomoretz
▴ 170
0
votes
0
replies
924
views
a simple question
Pathways
Pathways
19.2 years ago
Weiwei Shi
★ 1.2k
0
votes
0
replies
1.5k
views
BIRD Call for papers and posrters: New submission deadline September 15
Pathways
microRNA
Pathways
microRNA
19.2 years ago
Prof.Roland Wagner
▴ 60
0
votes
0
replies
1.6k
views
Postdoctoral Fellowship opportunity at Rosetta Inpharmatics, Seat tle, WA
Pathways
Network
Cancer
Pathways
Network
Cancer
19.3 years ago
Rohl, Carol A
▴ 10
0
votes
1
reply
1.4k
views
athPkgBuilder data source
Annotation
Pathways
GO
probe
oligo
Annotation
Pathways
GO
probe
oligo
updated 19.3 years ago by
Björn Usadel
▴ 250 • written 19.3 years ago by
Nianhua Li
▴ 870
0
votes
0
replies
1.5k
views
BIRD: Fiest internation conference : Bioinformatics in Research and Development
Pathways
microRNA
Pathways
microRNA
19.3 years ago
Prof.Roland Wagner
▴ 60
0
votes
1
reply
1.0k
views
Gene set analysis/Global test with 3 replicates
Pathways
Pathways
updated 19.4 years ago by
Oosting, J. PATH
▴ 550 • written 19.4 years ago by
Anthony Bosco
▴ 500
0
votes
0
replies
1.2k
views
BIRD
Pathways
microRNA
Pathways
microRNA
19.5 years ago
Prof.Roland Wagner
▴ 60
0
votes
5
replies
2.3k
views
extracting interactions between members of the KEGG pathways
Pathways
Infrastructure
Cancer
graph
Pathways
Infrastructure
Cancer
graph
updated 19.7 years ago by
rgentleman
★ 5.5k • written 19.7 years ago by
Jane Fridlyand
▴ 90
0
votes
0
replies
1.3k
views
Courses in Practical DNA Microarray Analysis 2006
Microarray
Genetics
Pathways
Preprocessing
Classification
Cancer
Microarray
Genetics
19.9 years ago
Wolfgang Huber
★ 13k
0
votes
0
replies
998
views
heatmap and hcluster from limma out put object
Pathways
limma
Pathways
limma
20.2 years ago
Gordon Smyth
53k
0
votes
0
replies
1.0k
views
heatmap and hcluster from limma out put object
Pathways
limma
Pathways
limma
20.3 years ago
Marcelo Luiz de Laia
▴ 770
0
votes
0
replies
822
views
nf kappa pathway
Pathways
Pathways
20.4 years ago
Auer Michael
▴ 250
0
votes
3
replies
1.9k
views
R: Pathway Information
Genetics
Pathways
Cancer
probe
globaltest
Genetics
Pathways
Cancer
probe
globaltest
updated 20.4 years ago by
Alberto Goldoni
▴ 360 • written 20.4 years ago by
John Zhang
★ 2.9k
0
votes
0
replies
1.3k
views
globaltest procedure
Pathways
Survival
globaltest
Pathways
Survival
globaltest
20.7 years ago
Goeman, J.J. MSTAT
▴ 150
0
votes
6
replies
1.9k
views
Getting GO terms and other annotation for Golub data set
Annotation
Pathways
GO
Annotation
Pathways
GO
20.8 years ago
michael watson IAH-C
★ 3.4k
0
votes
0
replies
1.2k
views
postdoc available
Pathways
Network
Classification
Cancer
Pathways
Network
Classification
Cancer
21.9 years ago
Jean-Philippe Vert
▴ 10
0
votes
2
replies
1.1k
views
index between genes and pathways
Pathways
GO
Yeast
Pathways
GO
Yeast
updated 22.0 years ago by
rgentleman
★ 5.5k • written 22.0 years ago by
Shih-Te Yang
▴ 80
0
votes
1
reply
1.1k
views
Limma issues.
Pathways
limma
Pathways
limma
updated 22.0 years ago by
Gordon Smyth
53k • written 22.0 years ago by
Marcus
▴ 150
246 results • Page
5 of 5
Recent ...
Replies
Comment: Getting a large intercept with DESeq2
by
Michael Love
43k
Thanks James -- Denise you can check the "note on factor levels" in the vignette. And I'd recommend `plotCounts()` for looking at individu…
Comment: Getting a large intercept with DESeq2
by
James W. MacDonald
68k
As a trivial example, consider this: ``` > model.matrix(~Treatment, data.frame(Treatment = factor(rep(1:3, each = 4)))) (Intercept) Tre…
Answer: Getting a large intercept with DESeq2
by
James W. MacDonald
68k
The default parameterization in R is a treatment-contrasts parameterization that sets one of your groups as the baseline. So the intercept …
Answer: Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single C
by
ATpoint
★ 5.0k
There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…
Answer: Post translational modifications and phosphoproteomics in limpa?
by
Gordon Smyth
53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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