Showing : Brain • reset
1
vote
2
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1.9k
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How to proceed with different degradation levels of RNA-seq samples?
degradation RNA-seq variability differential expression brain
updated 7.1 years ago by ★ 28k • written 7.1 years ago by ▴ 90
0
votes
1
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1.7k
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Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
updated 13.1 years ago by ▴ 80 • written 13.1 years ago by ▴ 620
0
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1
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3.0k
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2 way anova in Bioconductor
Microarray GO genefilter limma GeneSpring ABarray preprocessCore arrayQualityMetrics BRAIN
updated 12.8 years ago by ▴ 210 • written 12.9 years ago by ▴ 110
0
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9
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2.7k
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frma and alternative CDFs
GO cdf frma BRAIN GO cdf frma BRAIN
updated 9.8 years ago by ▴ 830 • written 9.8 years ago by ★ 13k
0
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0
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831
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Re: NormalizeForPrintorder
BRAIN BRAIN
20.9 years ago Gordon Smyth 50k
0
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0
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826
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Re: Additional questions regarding LIMMA
Normalization BRAIN Normalization BRAIN
20.9 years ago Gordon Smyth 50k
0
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0
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821
views
Re: LIMMA
Normalization BRAIN ASSIGN Normalization BRAIN ASSIGN
20.9 years ago Gordon Smyth 50k
0
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0
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843
views
Q-value package now available
BRAIN BRAIN
20.4 years ago Warnes, Gregory R ▴ 460
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0
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731
views
Overriding maPrintTip method
BRAIN BRAIN
20.2 years ago Kellie J. Archer, Ph.D. ▴ 120
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0
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1.5k
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New Alzheimer's disease microarray data set available
Microarray BRAIN Microarray BRAIN
19.8 years ago Eric Blalock ▴ 250
0
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3
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1.4k
views
human tissue specific genes
BRAIN BRAIN
updated 19.8 years ago by 21k • written 19.8 years ago by ▴ 80
0
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0
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888
views
help with limma contrast matrix
BRAIN BRAIN
19.5 years ago Kimpel, Mark W ▴ 890
0
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1
reply
1.3k
views
Cluster analysis distance measuer
Microarray Annotation Normalization Clustering Cancer affy limma AnnBuilder BRAIN Cancer
updated 19.5 years ago by ▴ 110 • written 19.5 years ago by ▴ 250
0
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3
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1.0k
views
limma design matrix
affy BRAIN affy BRAIN
updated 19.3 years ago by ▴ 720 • written 19.3 years ago by ▴ 250
0
votes
3
replies
1.4k
views
LIMMA lmscFit: difference between linear models
BRAIN BRAIN
18.6 years ago Koen Bossers ▴ 20
0
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1
reply
1.1k
views
GCRMA
Microarray Preprocessing gcrma BRAIN Microarray Preprocessing gcrma BRAIN
updated 18.3 years ago by ★ 2.0k • written 18.3 years ago by ▴ 20
0
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0
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938
views
4 replicates, of 3 tissues- one good hyb (2xreps), one bad hyb (2xreps). Best way forward?
qPCR affy affydata vsn limma gcrma matchprobes affyPLM affyio BRAIN qPCR affy affydata
17.7 years ago k. brand ▴ 420
0
votes
4
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1.5k
views
microarray analysis of a dose response * strain experiment
affy DOSE BRAIN affy DOSE BRAIN
updated 17.5 years ago by 21k • written 17.5 years ago by ▴ 890
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0
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1.2k
views
microarray analysis of a dose response * strain experiment
Microarray affy limma maSigPro DOSE BRAIN Microarray affy limma maSigPro DOSE BRAIN
17.5 years ago Naomi Altman ★ 6.0k
0
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0
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777
views
read.maimages broken (limma 2.9.10)?
BRAIN BRAIN
17.2 years ago Koen Bossers ▴ 10
0
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0
replies
786
views
read.maimages broken (limma 2.9.10)?
limma BRAIN limma BRAIN
17.2 years ago Gordon Smyth 50k
0
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0
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1.0k
views
Undergraduate Student Project Summer 2007, at EBI: the synapse and the brain
Pathways BRAIN Pathways BRAIN
17.2 years ago Wolfgang Huber ★ 13k
0
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0
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829
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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
16.8 years ago Neddy ▴ 10
0
votes
2
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1.5k
views
new topGO results using GO.db very different from old ones using GO
GO annotate topGO BRAIN GO annotate topGO BRAIN
updated 16.0 years ago by ▴ 400 • written 16.0 years ago by ▴ 730
0
votes
1
reply
1.1k
views
new lumi and miRNA array data
Microarray Normalization lumi BRAIN Microarray Normalization lumi BRAIN
updated 16.0 years ago by ★ 13k • written 16.0 years ago by ▴ 830
0
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3
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1.3k
views
How to filter a list of SNPs?
BRAIN BRAIN
updated 13.0 years ago by ★ 13k • written 13.0 years ago by ▴ 450
0
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5
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1.3k
views
P-values for tissue specific genes
BRAIN BRAIN
15.8 years ago Pascal Gellert ▴ 30
0
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0
replies
757
views
MAQC samples on Affymarix Exon array
BRAIN BRAIN
15.8 years ago Weiyin Zhou ▴ 20
0
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4
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1.7k
views
allen brain atlas
Genetics Annotation BRAIN Genetics Annotation BRAIN
updated 15.7 years ago by 25k • written 15.7 years ago by ▴ 60
0
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1
reply
1.3k
views
Creating a model matrix for three age groups using two-colour arrays
Microarray BRAIN Microarray BRAIN
updated 3.3 years ago by 50k • written 15.5 years ago by ▴ 10
0
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0
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803
views
Creating a model matrix for three age groups using two-colour arrays
Microarray limma BRAIN Microarray limma BRAIN
15.5 years ago Gordon Smyth 50k
0
votes
0
replies
767
views
How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
15.2 years ago Dmitriy Verkhoturov ▴ 10
0
votes
0
replies
797
views
How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
15.2 years ago Gordon Smyth 50k
0
votes
3
replies
1.2k
views
Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)
Microarray BRAIN Microarray BRAIN
updated 13.5 years ago by ▴ 10 • written 13.5 years ago by ▴ 40
0
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0
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993
views
Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
13.4 years ago Pan Du ★ 1.2k
0
votes
0
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774
views
How to: design matrices for multi organism parts experiment
Organism BRAIN Organism BRAIN
13.0 years ago Hans ▴ 10
0
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2
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1.2k
views
EBS volumes with the Bioconductor AMI: how to change default behaviour
BRAIN BRAIN
12.7 years ago Quin Wills ▴ 80
0
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7
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1.6k
views
EBS volumes with the Bioconductor AMI: how to change default behaviour
PROcess BRAIN PROcess BRAIN
12.7 years ago Dan Tenenbaum ★ 8.2k
0
votes
1
reply
927
views
[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 12.6 years ago by ▴ 150 • written 12.6 years ago by ▴ 30
0
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1
reply
1.2k
views
[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 12.6 years ago by ▴ 340 • written 12.6 years ago by ▴ 30
0
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0
replies
882
views
What is the difference of layout between genepix scanner & agilent scanner
limma BRAIN limma BRAIN
12.6 years ago 이선재 ▴ 30
0
votes
1
reply
1.2k
views
Three tenure track assistant professorship openings at Inst. Behavioral Genetics, University of Colorado Boulder
Genetics BRAIN Genetics BRAIN
12.1 years ago Matthew Keller ▴ 100
0
votes
0
replies
1.2k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
11.8 years ago alessandro.guffanti@genomnia.com ▴ 330
0
votes
3
replies
1.2k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
updated 11.8 years ago by 25k • written 11.8 years ago by 50k
0
votes
1
reply
1.2k
views
log2 and rowMeans a problem?
BRAIN BRAIN
updated 11.5 years ago by ★ 4.3k • written 11.5 years ago by ▴ 20
0
votes
0
replies
749
views
Differentially regulated genes
BRAIN BRAIN
11.2 years ago Ali Mohammadian ▴ 290
0
votes
0
replies
933
views
Error in example from biomaRt vignette
biomaRt BRAIN biomaRt BRAIN
11.0 years ago Steffen Durinck ▴ 90
0
votes
0
replies
1.9k
views
Tukey\'s HSD after ANOVA
GO BRAIN GO BRAIN
11.0 years ago Guest User ★ 13k
0
votes
0
replies
1.1k
views
Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
10.8 years ago _Bio - Informatics ▴ 20
0
votes
0
replies
1.4k
views
Job reminder: Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
10.8 years ago _Bio - Informatics ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and gives inflated significance, as we showed in our 2012 pap…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Answer: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…
Comment: Memory errors using read.bismark? by Juan Higareda • 0
Thanks a lot Peter, We solved the problem, IT had implemented a policy of RAM usage that started a conflict with any RAM-hungry process, m…
Answer: meffil.snp.concordance by James W. MacDonald 65k
This support site is meant to help people with technical questions about Bioconductor packages. The `meffil` package is not Bioconductor, n…
Votes
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
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