Showing : cancer • reset
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A question about criteria for calling gain and loss in aCGH data
aCGH Cancer aCGH aCGH Cancer aCGH
17.5 years ago affy snp ▴ 640
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3
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1.2k
views
SPECIAL 20% OFF DISCOUNT ON A NEW BOOK FROM CRC PRESS
Cancer Cancer
written 17.5 years ago by ▴ 40
0
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4
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1.5k
views
LARGE Change in GCRMA expression values between versions (REPEAT QUESTION: PLEASE REPLY)
Cancer gcrma Cancer gcrma
updated 17.5 years ago by ▴ 260 • written 17.5 years ago by ★ 2.0k
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9
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2.5k
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gains and losses via mode shifting
Cancer CGH Cancer CGH
17.6 years ago Oscar Rueda ▴ 60
0
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0
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969
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Pd info package affy 10K array
Microarray Annotation Network Cancer cdf probe affy Microarray Annotation Network Cancer
17.6 years ago Henrik Bengtsson ★ 2.4k
0
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1
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1.2k
views
kOverA(k, A=100, na.rm=TRUE)
GO Preprocessing Cancer genefilter limma GO Preprocessing Cancer genefilter limma
updated 17.6 years ago by ★ 5.5k • written 17.6 years ago by ▴ 30
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1.2k
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cross study comparison of cell populations
Cancer affy metaArray Cancer affy metaArray
17.6 years ago Max Kauer ▴ 140
0
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0
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765
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GCRMA-induced correlations? LARGE Change in GCRMA expression values (REPEAT QUESTION)
Microarray Normalization Cancer gcrma Microarray Normalization Cancer gcrma
17.6 years ago Richard Friedman ★ 2.0k
0
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1
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913
views
R 2.7.1
Cancer Cancer
updated 17.6 years ago by 21k • written 17.6 years ago by ★ 1.9k
0
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2
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1.5k
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CGH-like workflow for Affymetrix SNP 500k
aCGH SNP Cancer DNAcopy aCGH aCGH SNP Cancer DNAcopy aCGH
updated 17.6 years ago by ★ 2.4k • written 17.6 years ago by ★ 1.9k
0
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1
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656
views
Fwd: Re: html "help"
Microarray Cancer Microarray Cancer
updated 17.6 years ago by 68k • written 17.6 years ago by ★ 6.0k
1
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0
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1.9k
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Agilent - importing and reading problems
Microarray Cancer limma Microarray Cancer limma
17.6 years ago Bernal-Mizrachi, Leon ▴ 50
0
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3
replies
1.1k
views
Find Affy probes within a particular region
Annotation GO Cancer biomaRt Annotation GO Cancer biomaRt
updated 17.6 years ago by 68k • written 17.6 years ago by ★ 1.9k
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0
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1.0k
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GSEA GeneSetCollection for GO info from Illumina annotation package
Annotation GO Cancer Annotation GO Cancer
17.6 years ago Martin Morgan 25k
0
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2
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1.5k
views
Do my Limma results look "normal"?
Microarray Cancer Breast limma GeneSpring Microarray Cancer Breast limma GeneSpring
updated 17.6 years ago by ★ 1.3k • written 17.6 years ago by 53k
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0
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940
views
Possible Bug in readExpressionSet
Cancer Biobase Cancer Biobase
17.6 years ago Martin Morgan 25k
0
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0
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1.1k
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Jobs
Cancer Cancer
17.6 years ago Crispin Miller ★ 1.1k
0
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2
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1.6k
views
Do my Limma results look "normal"?
Microarray Cancer Breast limma GeneSpring Microarray Cancer Breast limma GeneSpring
updated 17.6 years ago by ★ 5.5k • written 17.6 years ago by ★ 1.3k
0
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0
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787
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Problem viewing vignettes : openPDF and pdfviewer and possible fix
Cancer Biobase Cancer Biobase
17.6 years ago Martin Morgan 25k
0
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0
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1.2k
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missing probes from illuminaHumanv3ProbeID.db
Annotation Cancer bgx Annotation Cancer bgx
17.6 years ago Lynn Amon ▴ 280
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0
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1.2k
views
Rank Products- breast cancer
Cancer RankProd Cancer RankProd
17.7 years ago Eleni Christodoulou ▴ 150
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0
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1.9k
views
open Junior group leader position, Medical University of Innsbruck, Austria
Proteomics Cancer microRNA tRanslatome Proteomics Cancer microRNA tRanslatome
17.7 years ago Johannes Rainer ▴ 300
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0
replies
870
views
Employment opportunities
Network Cancer Network Cancer
17.7 years ago Martin Morgan 25k
0
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0
replies
656
views
BioC 2008 updates
Cancer Cancer
17.7 years ago rgentleman ★ 5.5k
0
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3
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1.8k
views
Specific annotation information from ExpressionSet
Annotation Cancer probe Annotation Cancer probe
updated 17.7 years ago by 25k • written 17.7 years ago by ★ 1.9k
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0
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1.6k
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Bioinformatics Faculty Position available at UCSF Cancer Center
Proteomics Cancer Proteomics Cancer
17.7 years ago Ru-Fang Yeh ▴ 20
0
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0
replies
1.5k
views
Variance correction, coxph or cph model
Cancer Cancer
17.7 years ago Aedin Culhane ▴ 510
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5
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3.7k
views
Finding genes with significant linear regression or trend
Microarray Regression Cancer limma DOSE Microarray Regression Cancer limma DOSE
updated 17.7 years ago by ▴ 340 • written 17.7 years ago by ★ 1.9k
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0
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1.3k
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Rtreemix (NEW package)
Cancer HIV Rtreemix Cancer HIV Rtreemix
17.7 years ago Jasmina Bogojeska ▴ 30
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2
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1.8k
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GSEABase how to map gene symbols to mouse EntrezId or Affy
Cancer affy Cancer affy
17.7 years ago Martin Morgan 25k
0
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1
reply
824
views
GCRMA-induced correlations? LARGE Change in GCRMA expression values
Microarray Normalization Cancer gcrma Microarray Normalization Cancer gcrma
updated 17.7 years ago by ★ 4.1k • written 17.7 years ago by ★ 2.0k
0
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0
replies
614
views
Bioinformatics Engineer for Deep Sequencing
Cancer Cancer
17.7 years ago N S ▴ 10
0
votes
1
reply
966
views
Limma: Design matrix question
Microarray Cancer Microarray Cancer
updated 17.7 years ago by ▴ 100 • written 17.7 years ago by ★ 1.9k
0
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0
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1.1k
views
snapCGH and Nimblegen arrays
Cancer snapCGH Cancer snapCGH
17.7 years ago Gareth Wilson ▴ 10
0
votes
3
replies
1.3k
views
aCGH package - performance Issues
SNP Cancer SNP Cancer
17.7 years ago Julian Lee ▴ 140
0
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3
replies
2.1k
views
ExpressionSet or MAList
Annotation ExperimentData Cancer Annotation ExperimentData Cancer
updated 17.7 years ago by 53k • written 17.7 years ago by ★ 1.9k
0
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1
reply
811
views
ExpressionSet or MAList
Microarray Annotation Cancer Microarray Annotation Cancer
updated 17.7 years ago by ★ 13k • written 17.7 years ago by 53k
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0
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2.2k
views
Bioinformatics Positions, National Cancer Centre Singapore
Microarray Epigenetics Cancer Microarray Epigenetics Cancer
17.7 years ago Julian Lee ▴ 140
0
votes
3
replies
1.2k
views
MIAME object and abstract
Cancer Cancer
updated 17.7 years ago by 25k • written 17.7 years ago by ★ 1.9k
0
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1
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1.1k
views
Detection above background (dabg) within bioconductor
Cancer Cancer
updated 17.7 years ago by ★ 3.9k • written 17.7 years ago by ★ 1.9k
0
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1
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1.7k
views
BioC 2.2 now available
SNP Microarray Genetics Annotation Preprocessing Bayesian Clustering Infrastructure Cancer
updated 17.7 years ago by ★ 1.6k • written 17.7 years ago by 25k
0
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0
replies
695
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Cutoff for non-specific gene filtering?
Cancer Cancer
17.7 years ago Suraj Menon ▴ 50
0
votes
1
reply
1.1k
views
Separate function edit window in Linux
Cancer Cancer
updated 17.7 years ago by ★ 1.1k • written 17.7 years ago by ★ 1.9k
0
votes
1
reply
873
views
ExpressionSet or MAList
Microarray Annotation Cancer Microarray Annotation Cancer
updated 17.7 years ago by 25k • written 17.7 years ago by ★ 1.9k
0
votes
1
reply
1.7k
views
Bug report: Help pages for degree (package graph) not displayed
Cancer graph SNAData Cancer graph SNAData
updated 17.7 years ago by ★ 1.6k • written 17.7 years ago by 25k
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0
replies
1.6k
views
Bioinformatics Positions, M. D. Anderson Cancer Center
Proteomics Cancer Proteomics Cancer
17.8 years ago caiwei@mdanderson.org ▴ 110
0
votes
4
replies
1.5k
views
mouse4302.db vs mouse 4302
Annotation Cancer mouse4302 Annotation Cancer mouse4302
updated 17.8 years ago by ★ 7.2k • written 17.8 years ago by ★ 2.0k
0
votes
1
reply
792
views
Limma: import files with genes missing
Annotation Cancer probe limma ASSIGN Annotation Cancer probe limma ASSIGN
17.8 years ago Gordon Smyth 53k
0
votes
0
replies
822
views
Limma: import files with genes missing
Cancer probe limma Cancer probe limma
17.8 years ago Daniel Brewer ★ 1.9k
0
votes
3
replies
1.4k
views
mouse4302,db_2.0.2 in AffylmGUI
Annotation Cancer mouse4302 affy limma Annotation Cancer mouse4302 affy limma
updated 17.8 years ago by ▴ 450 • written 17.8 years ago by ★ 2.0k
1,555 results • Page 20 of 32
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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
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Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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