Showing : brain • reset
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1.5k
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Creating a model matrix for three age groups using two-colour arrays
Microarray BRAIN Microarray BRAIN
updated 3.9 years ago by 52k • written 16.1 years ago by ▴ 10
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Job: Data science research assistant position at Johns Hopkins
RNAseq R Next-Gen Sequencing Imaging Brain Job
5.7 years ago hjaarop1 • 0
0
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1
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1.3k
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CAGEr - How to change plot axis range in CAGEr
BRAIN CAGEr BRAIN CAGEr
updated 6.6 years ago by ▴ 180 • written 10.4 years ago by ▴ 10
1
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2
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2.1k
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How to proceed with different degradation levels of RNA-seq samples?
degradation RNA-seq variability differential expression brain
updated 7.7 years ago by ★ 28k • written 7.7 years ago by ▴ 90
0
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9
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3.0k
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frma and alternative CDFs
GO cdf frma BRAIN GO cdf frma BRAIN
updated 10.4 years ago by ▴ 830 • written 10.4 years ago by ★ 13k
0
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0
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1.5k
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Job reminder: Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
11.4 years ago _Bio - Informatics ▴ 20
0
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0
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1.3k
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Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
11.5 years ago _Bio - Informatics ▴ 20
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0
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1.1k
views
Error in example from biomaRt vignette
biomaRt BRAIN biomaRt BRAIN
11.6 years ago Steffen Durinck ▴ 90
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2.1k
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Tukey\'s HSD after ANOVA
GO BRAIN GO BRAIN
11.6 years ago Guest User ★ 13k
0
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848
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Differentially regulated genes
BRAIN BRAIN
11.8 years ago Ali Mohammadian ▴ 290
0
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1
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1.4k
views
log2 and rowMeans a problem?
BRAIN BRAIN
updated 12.1 years ago by ★ 4.3k • written 12.1 years ago by ▴ 20
0
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3
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1.3k
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edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
updated 12.4 years ago by 25k • written 12.4 years ago by 52k
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1.3k
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edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
12.5 years ago alessandro.guffanti@genomnia.com ▴ 330
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1
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1.4k
views
Three tenure track assistant professorship openings at Inst. Behavioral Genetics, University of Colorado Boulder
Genetics BRAIN Genetics BRAIN
12.7 years ago Matthew Keller ▴ 100
0
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0
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1.0k
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What is the difference of layout between genepix scanner & agilent scanner
limma BRAIN limma BRAIN
13.2 years ago 이선재 ▴ 30
0
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1
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1.3k
views
[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 13.2 years ago by ▴ 340 • written 13.2 years ago by ▴ 30
0
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1
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1.1k
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[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 13.2 years ago by ▴ 150 • written 13.2 years ago by ▴ 30
0
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7
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1.8k
views
EBS volumes with the Bioconductor AMI: how to change default behaviour
PROcess BRAIN PROcess BRAIN
13.4 years ago Dan Tenenbaum ★ 8.2k
0
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2
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1.4k
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EBS volumes with the Bioconductor AMI: how to change default behaviour
BRAIN BRAIN
13.4 years ago Quin Wills ▴ 80
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1
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3.2k
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2 way anova in Bioconductor
Microarray GO genefilter limma GeneSpring ABarray preprocessCore arrayQualityMetrics BRAIN
updated 13.5 years ago by ▴ 210 • written 13.5 years ago by ▴ 110
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0
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902
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How to: design matrices for multi organism parts experiment
Organism BRAIN Organism BRAIN
13.6 years ago Hans ▴ 10
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3
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1.4k
views
How to filter a list of SNPs?
BRAIN BRAIN
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 450
0
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1
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1.8k
views
Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
updated 13.8 years ago by ▴ 80 • written 13.8 years ago by ▴ 620
0
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0
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1.1k
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Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
14.0 years ago Pan Du ★ 1.2k
0
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3
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1.4k
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Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)
Microarray BRAIN Microarray BRAIN
updated 14.2 years ago by ▴ 10 • written 14.2 years ago by ▴ 40
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0
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940
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How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
15.9 years ago Gordon Smyth 52k
0
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0
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878
views
How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
15.9 years ago Dmitriy Verkhoturov ▴ 10
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3
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1.3k
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problems with paired design in limma
Microarray BRAIN Microarray BRAIN
16.1 years ago Michael Walter ▴ 160
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910
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Creating a model matrix for three age groups using two-colour arrays
Microarray limma BRAIN Microarray limma BRAIN
16.1 years ago Gordon Smyth 52k
0
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4
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2.0k
views
allen brain atlas
Genetics Annotation BRAIN Genetics Annotation BRAIN
updated 16.3 years ago by 25k • written 16.3 years ago by ▴ 60
0
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0
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878
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MAQC samples on Affymarix Exon array
BRAIN BRAIN
16.4 years ago Weiyin Zhou ▴ 20
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5
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1.5k
views
P-values for tissue specific genes
BRAIN BRAIN
16.4 years ago Pascal Gellert ▴ 30
0
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1
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1.2k
views
new lumi and miRNA array data
Microarray Normalization lumi BRAIN Microarray Normalization lumi BRAIN
updated 16.6 years ago by ★ 13k • written 16.6 years ago by ▴ 830
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2
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1.7k
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new topGO results using GO.db very different from old ones using GO
GO annotate topGO BRAIN GO annotate topGO BRAIN
updated 16.6 years ago by ▴ 400 • written 16.6 years ago by ▴ 730
0
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0
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939
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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
17.5 years ago Neddy ▴ 10
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1.2k
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Undergraduate Student Project Summer 2007, at EBI: the synapse and the brain
Pathways BRAIN Pathways BRAIN
17.8 years ago Wolfgang Huber ★ 13k
0
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0
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946
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read.maimages broken (limma 2.9.10)?
limma BRAIN limma BRAIN
17.9 years ago Gordon Smyth 52k
0
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0
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868
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read.maimages broken (limma 2.9.10)?
BRAIN BRAIN
17.9 years ago Koen Bossers ▴ 10
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0
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1.3k
views
microarray analysis of a dose response * strain experiment
Microarray affy limma maSigPro DOSE BRAIN Microarray affy limma maSigPro DOSE BRAIN
18.1 years ago Naomi Altman ★ 6.0k
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4
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1.7k
views
microarray analysis of a dose response * strain experiment
affy DOSE BRAIN affy DOSE BRAIN
updated 18.1 years ago by 21k • written 18.1 years ago by ▴ 890
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1.0k
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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
18.3 years ago k. brand ▴ 420
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1
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1.2k
views
GCRMA
Microarray Preprocessing gcrma BRAIN Microarray Preprocessing gcrma BRAIN
updated 18.9 years ago by ★ 2.0k • written 18.9 years ago by ▴ 20
0
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3
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1.6k
views
LIMMA lmscFit: difference between linear models
BRAIN BRAIN
19.2 years ago Koen Bossers ▴ 20
0
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3
replies
1.2k
views
limma design matrix
affy BRAIN affy BRAIN
updated 20.0 years ago by ▴ 720 • written 20.0 years ago by ▴ 250
0
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1
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1.4k
views
Cluster analysis distance measuer
Microarray Annotation Normalization Clustering Cancer affy limma AnnBuilder BRAIN Cancer
updated 20.1 years ago by ▴ 110 • written 20.1 years ago by ▴ 250
0
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0
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1.0k
views
help with limma contrast matrix
BRAIN BRAIN
20.1 years ago Kimpel, Mark W ▴ 890
0
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3
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1.6k
views
human tissue specific genes
BRAIN BRAIN
updated 20.4 years ago by 21k • written 20.4 years ago by ▴ 80
0
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0
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1.6k
views
New Alzheimer's disease microarray data set available
Microarray BRAIN Microarray BRAIN
20.4 years ago Eric Blalock ▴ 250
0
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0
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845
views
Overriding maPrintTip method
BRAIN BRAIN
20.8 years ago Kellie J. Archer, Ph.D. ▴ 120
0
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0
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952
views
Q-value package now available
BRAIN BRAIN
21.0 years ago Warnes, Gregory R ▴ 460
50 results • Page 1 of 1
Recent ...
Replies
Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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