Showing : regression • reset
11
votes
3
replies
1.7k
views
Fit a multinomial to RNA-seq count data
voom limma glm multinomial regression
updated 7.8 years ago by ★ 3.3k • written 7.8 years ago by ▴ 110
8
votes
3
replies
6.9k
views
Removing batch effects with sva and combat using the sva package
Regression limma sva Regression limma sva
updated 12.4 years ago by ▴ 60 • written 12.4 years ago by ▴ 650
7
votes
4
replies
4.2k
views
Limma when to use zero intercept
limma regression differential expression linear model
updated 4.2 years ago by 50k • written 4.2 years ago by • 0
6
votes
7
replies
2.1k
views
Multi-level experiment with limma
limma design and contrast matrix differential gene expression regression
updated 6.8 years ago by ★ 28k • written 6.8 years ago by • 0
5
votes
25
replies
827
views
limma models out of memory issue on Slurm HPC
Regression limma STATISITICS HPC
updated 21 days ago by 50k • written 4 weeks ago by ▴ 10
4
votes
3
replies
991
views
Diffbind for regressing multiple confounding variables (blocking factors)
diffbind block regression deseq2 chipseq
updated 3.5 years ago by ★ 5.2k • written 4.5 years ago by ▴ 10
3
votes
3
replies
1.2k
views
Limma - Two-color group differences *and* correlation with individual differences.
limma regression
updated 7.2 years ago by 50k • written 7.2 years ago by ▴ 30
3
votes
0
replies
2.7k
views
Evidence-based guidelines for use the method="robust" option in lmFit
Microarray Normalization Bayesian Regression Cancer limma Microarray Normalization Cancer
12.9 years ago Richard Friedman ★ 2.0k
2
votes
5
replies
15k
views
Limma design and contrast matrix question.
Microarray Regression limma Microarray Regression limma
updated 10.3 years ago by 65k • written 10.3 years ago by ▴ 350
2
votes
4
replies
1.2k
views
Overfitting in limma
limma Regression overfitting
updated 23 months ago by 50k • written 24 months ago by ▴ 30
2
votes
2
replies
2.2k
views
[limma] [Rfit] [samr] Gene expression distribution using lmFit and eBayes
Microarray Regression Microarray Regression
updated 10.4 years ago by 50k • written 10.4 years ago by ▴ 30
2
votes
23
replies
3.5k
views
Coping with a label/class imbalance in DESeq2
deseq2 rnaseq r regression
updated 7.6 years ago by 41k • written 7.6 years ago by • 0
1
vote
1
reply
804
views
limma: pvalues for coefficients topTable
TimeSeriesExperiment Regression top limma
updated 2.7 years ago by 65k • written 2.7 years ago by • 0
1
vote
2
replies
3.4k
views
Kernel Ridge Regression in R for Drug-Target Interaction
regression kernel ridge r
updated 7.6 years ago by • 0 • written 8.0 years ago by • 0
1
vote
1
reply
7.1k
views
[LIMMA]lmFit with continuous predictor
Regression limma Regression limma
updated 11.8 years ago by ▴ 130 • written 11.8 years ago by ▴ 210
1
vote
3
replies
2.1k
views
limma report logFC confidence interval?
Regression limma Regression limma
updated 2.9 years ago by 50k • written 13.3 years ago by ▴ 40
1
vote
5
replies
1.8k
views
deseq2 normalized data
regression deseq2 counts
updated 8.6 years ago by 41k • written 8.6 years ago by • 0
1
vote
2
replies
782
views
EdgeR -- differentially expressed genes across a continuous variable
edger continuous regression
updated 5.2 years ago by 65k • written 5.2 years ago by • 0
0
votes
7
replies
1.4k
views
M vs A plot
Microarray Normalization Regression Cancer marray Microarray Normalization Regression
updated 20.2 years ago by ★ 6.0k • written 20.2 years ago by ★ 2.0k
0
votes
1
reply
1.1k
views
question about limma fit differences?
Regression limma Regression limma
updated 20.2 years ago by 50k • written 20.2 years ago by ▴ 20
0
votes
3
replies
1.4k
views
GCRMA: feature request
GO Regression probe gcrma frma GO Regression probe gcrma frma
updated 13.3 years ago by ▴ 250 • written 13.3 years ago by ★ 3.9k
0
votes
1
reply
704
views
mean versus linear model?
Regression limma Regression limma
updated 20.3 years ago by ★ 6.0k • written 20.3 years ago by ▴ 340
0
votes
0
replies
774
views
Re: limma linear model [was: (no subject)]
Regression Regression
19.5 years ago karen ▴ 30
0
votes
0
replies
774
views
limma linear model [was: (no subject)]
Regression Regression
19.5 years ago Gordon Smyth 50k
0
votes
0
replies
987
views
Confusion over limma documentation and design/contrast matrix
GO Regression limma GO Regression limma
19.5 years ago Gordon Smyth 50k
0
votes
0
replies
990
views
Confusion over limma documentation and design/contrast matrix
GO Regression limma GO Regression limma
19.5 years ago michael watson IAH-C ★ 3.4k
0
votes
1
reply
2.1k
views
Dose-Response: Regressiion and ANOVA
Regression DOSE Regression DOSE
updated 19.3 years ago by ▴ 360 • written 19.3 years ago by ▴ 620
0
votes
0
replies
665
views
Gene selection: association with linear response and correction for multi test
Regression limma siggenes Regression limma siggenes
19.1 years ago david neil hayes ▴ 70
0
votes
2
replies
3.5k
views
multtest and Cox regression
Regression multtest Regression multtest
updated 19.0 years ago by ▴ 10 • written 19.0 years ago by ▴ 140
0
votes
0
replies
2.5k
views
Cox MTP question
Microarray Regression multtest Microarray Regression multtest
19.0 years ago kpollard ▴ 110
0
votes
0
replies
1.0k
views
Conference announcement: Compstat 2004
Visualization Bayesian Classification Clustering Regression Visualization Bayesian
20.5 years ago Wolfgang Huber ★ 13k
0
votes
0
replies
1.3k
views
qPCR Event Calendar - winter 2010
SNP qPCR Genetics Normalization Clustering Regression Cancer Breast Xenopus laevis probe
13.5 years ago qPCR Platform - the reference in real-t… ▴ 170
0
votes
5
replies
1.3k
views
limma question: direct two-color design & modeling individual subject effects
SystemsBiology Regression probe limma SystemsBiology Regression probe limma
updated 17.0 years ago by ★ 1.1k • written 17.0 years ago by 50k
0
votes
0
replies
721
views
re: Loess
Regression Regression
19.6 years ago David Lee Duewer ▴ 40
0
votes
0
replies
972
views
Unexpected results using limma with numerical factor - regression intercept?
GO Regression limma convert GO Regression limma convert
19.7 years ago Gordon Smyth 50k
0
votes
0
replies
727
views
Off topic: predoctoral grant
Regression Survival Cancer Regression Survival Cancer
20.6 years ago Ramon Diaz ★ 1.1k
0
votes
0
replies
930
views
RE: Design matrix with multiple genotypes + quantified variables (+cor/regression)
Regression limma Regression limma
19.7 years ago Gordon Smyth 50k
0
votes
0
replies
537
views
Reference on linear models [was LIMMA makeContrasts question]
Regression limma Regression limma
17.4 years ago Gordon Smyth 50k
0
votes
0
replies
869
views
tricky batch problem
Metabolomics Regression Metabolomics Regression
17.5 years ago E. Schwarz ▴ 10
0
votes
0
replies
1.0k
views
Unexpected results using limma with numerical factor - regression intercept?
GO Regression limma GO Regression limma
19.7 years ago Matthew Hannah ▴ 940
0
votes
0
replies
697
views
Reference on linear models
Regression limma Regression limma
17.4 years ago Katherine Lawler ▴ 10
0
votes
0
replies
920
views
Course*** R/S+: Fundamentals and Programming Techniques - Princeton, March 1-2
Microarray Classification Clustering Regression Microarray Classification Clustering
17.2 years ago sue@xlsolutions-corp.com ▴ 570
0
votes
0
replies
727
views
9 Courses: Upcoming July 2007 R/S+ schedule by XLSolutions Corp
Regression Regression
16.9 years ago sue@xlsolutions-corp.com ▴ 570
0
votes
0
replies
717
views
Regressions in multtest
Regression Regression
16.8 years ago Benjamin Otto ▴ 830
0
votes
0
replies
970
views
Pvalue permutation of Linear regression
Regression Regression
16.8 years ago Benjamin Otto ▴ 830
0
votes
1
reply
966
views
batch effects and VSN
Normalization Regression vsn limma oligo Normalization Regression vsn limma oligo
updated 16.6 years ago by ★ 13k • written 16.6 years ago by ▴ 330
0
votes
1
reply
1.3k
views
Bioconductor 2.1 is released
SNP Microarray SAGE Annotation Bayesian Regression GUI CGH hgu95av2 graph Rgraphviz SNP
16.6 years ago Hervé Pagès 16k
0
votes
4
replies
2.1k
views
How to create nested data frames
Regression Regression
16.5 years ago Ana Conesa ▴ 130
0
votes
0
replies
1.2k
views
NEW deadline - Talk & Poster Call - qPCR 2009 Event
SNP qPCR Normalization Visualization Regression Cancer probe microRNA SNP qPCR Cancer
15.3 years ago qPCR Platform - the reference in real-t… ▴ 170
0
votes
0
replies
772
views
p-value adjustment when two or more genes are compared at same time
Regression Cancer multtest Regression Cancer multtest
20.7 years ago Jason Liao ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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