Showing : cancer • reset
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Limma: doing multiple paired t-tests in one go...
Microarray GO Cancer limma Microarray GO Cancer limma
18.1 years ago Gordon Smyth 53k
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994
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CAMDA07 Conference at Valencia. Agenda is now available
Microarray Cancer Microarray Cancer
18.2 years ago Ana Conesa ▴ 340
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Analysis of Illumina methylation array data using beadarray
Cancer PROcess beadarray Cancer PROcess beadarray
18.2 years ago Kellie J. Archer, Ph.D. ▴ 120
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beadarray package: problem with object made by createBeadSummaryData
Cancer beadarray Cancer beadarray
18.2 years ago Martin Morgan 25k
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1
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1.0k
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Mapping Affy probes to OperonID or ensemblID
Cancer hgu133plus2 Cancer hgu133plus2
updated 18.2 years ago by 21k • written 18.2 years ago by ▴ 140
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3
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1.8k
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CGH DNAcopy plot multiple samples on one plot
Cancer DNAcopy Cancer DNAcopy
updated 18.2 years ago by ▴ 50 • written 18.2 years ago by ★ 1.9k
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BIRD 2008
Genetics Pathways Cancer PROcess microRNA a4 Genetics Pathways Cancer PROcess microRNA
18.2 years ago Prof. Roland Wagner ▴ 100
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made4, memory issues
Network Clustering Cancer Yeast made4 Network Clustering Cancer Yeast made4
18.2 years ago Aedin Culhane ▴ 510
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2.1k
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Median-Interquartile Normalization
Microarray SystemsBiology Annotation GO Preprocessing Clustering Cancer Yeast Organism GO
18.2 years ago McGee, Monnie ▴ 300
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1
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1.2k
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Limma: eBayes makes p-values larger
Cancer multtest limma Cancer multtest limma
updated 18.2 years ago by 68k • written 18.2 years ago by ★ 1.9k
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13
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2.7k
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Is a number within a set of ranges?
Cancer Cancer
18.2 years ago Daniel Brewer ★ 1.9k
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726
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Short Course in Seattle
Cancer Cancer
18.2 years ago rgentleman ★ 5.5k
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1.3k
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CAMDA 2007 Conference: EMERALD Worshop and student fellowships available. Poster submission deadline extended.
Microarray Cancer Microarray Cancer
18.3 years ago Ana Conesa ▴ 340
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1.7k
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RE : Limma: Normalization with large numbers ofdifferentially expressed genes
Normalization Cancer PROcess Normalization Cancer PROcess
updated 18.3 years ago by ★ 1.9k • written 18.3 years ago by ▴ 90
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Limma: Normalization with large numbers of differentially expressed genes
Normalization Cancer limma PROcess Normalization Cancer limma PROcess
updated 18.3 years ago by ★ 1.9k • written 18.3 years ago by ▴ 90
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biocLite() and getBioC scripts install development packages!
Microarray Cancer Microarray Cancer
updated 18.3 years ago by 16k • written 18.3 years ago by ▴ 630
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711
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biocLite() and getBioC scripts install development packages!
Microarray Cancer Microarray Cancer
18.3 years ago Martin Morgan 25k
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2
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1.6k
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Chromosome 23 and 24 dropped after run snapCGH processCGH
aCGH Survival Cancer annotate genefilter affy DNAcopy aCGH GLAD tilingArray snapCGH
updated 18.3 years ago by ▴ 40 • written 18.3 years ago by ▴ 110
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1.2k
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CAMDA07 publishing in Genomics
Microarray Cancer Microarray Cancer
18.3 years ago Ana Conesa ▴ 340
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2
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1.0k
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Beadarray negative background values (bug?)
Cancer beadarray Cancer beadarray
updated 18.3 years ago by ▴ 460 • written 18.3 years ago by ▴ 10
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2
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1.1k
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Live linux CD with bioconductor on
Cancer Cancer
updated 18.3 years ago by 16k • written 18.3 years ago by ★ 1.9k
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1
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1.1k
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I would like to join the mailing list
Cancer Cancer
updated 18.3 years ago by ▴ 390 • written 18.3 years ago by ▴ 110
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10
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2.4k
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Problem with invalid GO term in HyperGResult object - NOT solved
GO Cancer GOstats affycoretools GO Cancer GOstats affycoretools
updated 18.4 years ago by ★ 2.2k • written 18.4 years ago by ★ 7.4k
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1
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1.2k
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Between array normalization for biological replicates
Microarray Normalization Cancer limma Microarray Normalization Cancer limma
updated 18.4 years ago by ★ 13k • written 18.4 years ago by ▴ 90
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1.3k
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biomaRt -> XML::addNode masks graph
SystemsBiology Cancer graph biomaRt SystemsBiology Cancer graph biomaRt
18.4 years ago Seth Falcon ★ 7.4k
0
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787
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gene expression data help
Cancer Cancer
updated 18.4 years ago by 21k • written 18.4 years ago by ▴ 600
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2
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770
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Problematic circular design
Cancer Cancer
updated 18.4 years ago by 68k • written 18.4 years ago by ★ 1.9k
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0
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744
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hgu95a probe co-ordinates in May 2004 assembly
Cancer hgu95a affy Cancer hgu95a affy
18.4 years ago Janet Young ▴ 740
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Does anyone have the same problem with new("ExpressionSet", ...) ?
Cancer Biobase Cancer Biobase
18.4 years ago Seth Falcon ★ 7.4k
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0
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759
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A big change for Seth
Cancer Cancer
18.4 years ago Seth Falcon ★ 7.4k
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0
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885
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Schedule for BioC 2.1 release
Cancer Cancer
18.4 years ago Seth Falcon ★ 7.4k
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1
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1.4k
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Question about inconsistent gene expression
Microarray Cancer hgu133plus2 probe affy limma gcrma Microarray Cancer hgu133plus2 probe
updated 18.4 years ago by ▴ 120 • written 18.4 years ago by ▴ 40
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681
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Charity Project
Cancer Cancer
18.4 years ago faith King ▴ 10
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1.1k
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package contribution DEADLINE for BioC 2.1: Aug 27
Cancer Cancer
18.4 years ago Seth Falcon ★ 7.4k
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0
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1.3k
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Questions about Affymetrix E. Coli arrays
Normalization Cancer affy gcrma affyPLM Normalization Cancer affy gcrma affyPLM
18.4 years ago Jenny Drnevich ★ 2.2k
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798
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[R] trouble extracting R code from vignette using example from www.bioconductor.org
Cancer Cancer
18.4 years ago Seth Falcon ★ 7.4k
0
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854
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question regarding lumiHumanV1SUMFUNC and lumiRatV1SUMFUNC in lumiHumanV1 and lumiRatV1, respectively
Annotation Infrastructure Cancer Annotation Infrastructure Cancer
18.4 years ago Seth Falcon ★ 7.4k
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1.6k
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DNAcopy plot just one sample
Cancer DNAcopy Cancer DNAcopy
updated 18.5 years ago by 25k • written 18.5 years ago by ★ 1.9k
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1
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1.1k
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Limma: Ignoring sample in differential analysis
Cancer limma Category Cancer limma Category
updated 18.5 years ago by ▴ 470 • written 18.5 years ago by ★ 1.9k
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1
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874
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An error of affylmGUI
Cancer Cancer
updated 18.5 years ago by ▴ 450 • written 18.5 years ago by ★ 7.4k
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0
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877
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exonmap install problem
Cancer exonmap Cancer exonmap
18.5 years ago Seth Falcon ★ 7.4k
0
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1
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879
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Comparing limma results of two different groupings
Cancer limma Cancer limma
updated 18.5 years ago by ★ 6.5k • written 18.5 years ago by ★ 1.9k
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0
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1.2k
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FDR of enrichment analysis and other questions on GOstats
Cancer GOstats GLAD Cancer GOstats GLAD
18.5 years ago Serge Eifes ▴ 90
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0
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1.1k
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Distance function and gene expression standardization for clustering
Clustering Cancer Clustering Cancer
18.5 years ago Serge Eifes ▴ 90
0
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3
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897
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Trying to convert to ExpressionSet object problems
Cancer Cancer
updated 18.5 years ago by 25k • written 18.5 years ago by ★ 1.9k
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0
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707
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FYI: update on recent flurry of back-dated posts
Cancer Cancer
18.5 years ago Seth Falcon ★ 7.4k
0
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10
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2.7k
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comparing GO lists
Annotation GO Cancer graph GOstats Annotation GO Cancer graph GOstats
updated 18.5 years ago by ▴ 130 • written 18.5 years ago by ★ 5.5k
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2
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1.1k
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Problems with gcrma using latest version of R and Bioconductor
Cancer Cancer
updated 18.5 years ago by ★ 1.3k • written 18.5 years ago by ★ 7.4k
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0
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1.2k
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Limma and randomized block design for time-course microarray experiment
Microarray Cancer limma Microarray Cancer limma
18.5 years ago Gordon Smyth 53k
0
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0
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719
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extraction of detectable genes in illumina data.
Cancer Cancer
18.5 years ago Zara Ghazoui ▴ 10
1,555 results • Page 22 of 32
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Comment: Pairwise comparison of multiple groups with different base by ja569116 • 0
Hi @mikelove I have a similar situation, and I feel that I have interpreted the results in the wrong way. In my case I would like to identi…
Comment: Are individual-mouse-based statistics possible in CellChat? by TikTsossakaas33ocissalpc • 0
Questions about comparing groups and statistical significance highlight how data driven thinking matters across fields. In online mobile ga…
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…
Votes
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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