Showing : limmaGUI • reset
1
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368
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Why is my gene not significantly differentially expressed?
limmaGUI edgeR limma
updated 4 weeks ago by 50k • written 5 weeks ago by • 0
0
votes
2
replies
314
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limma model matrix questions
limmaGUI limma pairedsamples
12 weeks ago whyw6948 • 0
0
votes
1
reply
229
views
Main effect on multiple comparisons in limma
limmaGUI lim MultipleComparison multip
updated 12 weeks ago by 50k • written 3 months ago by • 0
1
vote
4
replies
435
views
limma design model for categorical variable
DNAMethylation limmaGUI biostatistics limma
updated 3 months ago by 50k • written 3 months ago by ▴ 10
1
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5
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1.1k
views
Does voom normalization quantile create difference in DGE genes when distribution of patients is similar (no big differences in quantiles)?
limmaGUI normalization limma voom Normalization
updated 10 months ago by 50k • written 10 months ago by • 0
0
votes
1
reply
649
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 12 months ago by 50k • written 12 months ago by • 0
1
vote
1
reply
799
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr limmaGUI p-values limma
updated 19 months ago by 65k • written 19 months ago by • 0
1
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2
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982
views
Limma adj.p.value the same for many different p.values
limmaGUI limma adj.p.value StatisticalMethod
19 months ago walkerrh95 • 0
2
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6
replies
1.1k
views
Limma beta coefficient confidence intervals
limma limmaGUI beta
22 months ago fluentin44 • 0
0
votes
1
reply
799
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Differential Expression Analysis-Input is DESeq Standardized
rnaseq RNASeqData limma limmaGUI
updated 2.1 years ago by 42k • written 2.1 years ago by • 0
3
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6
replies
6.8k
views
Unable to install "limma" package on RStudio
Bioconductor limma limmaGUI
2.2 years ago jaydengitt • 0
6
votes
4
replies
999
views
Limma prametrization
limm MathematicalBiology limmaGUI StatisticalMethod
2.3 years ago Giovanni • 0
0
votes
1
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1.6k
views
shiny account on mac not deploying server
limmagui shiny
8.1 years ago christopher.clarskon15 ▴ 20
2
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5
replies
1.7k
views
NA coefficients values for samples with all zeros
limmagui proteomics
8.5 years ago vedran.franke • 0
0
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0
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1.2k
views
ATTN: Clark Wilson filtering for present calls
limmaGUI limmaGUI
14.1 years ago Sinha, Mala ▴ 10
0
votes
2
replies
1.2k
views
problem detected during utilization of LimmaGUI
Microarray limmaGUI Microarray limmaGUI
updated 14.4 years ago by ★ 7.4k • written 14.4 years ago by ▴ 10
1
vote
5
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2.8k
views
Using Limma for proteomics (2D DIGE) datasets
Proteomics limma impute limmaGUI Proteomics limma impute limmaGUI
updated 8.9 years ago by • 0 • written 14.6 years ago by ▴ 60
0
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4
replies
1.4k
views
getting normexp (and log2 transformed) values - not further-processed M values
Microarray limma limmaGUI Microarray limma limmaGUI
14.6 years ago adoty@umd.edu ▴ 30
0
votes
1
reply
1.2k
views
limmaGUI - venn-diagram & top-table anomaly?
limmaGUI limmaGUI
updated 14.7 years ago by ▴ 450 • written 14.7 years ago by ▴ 10
0
votes
0
replies
924
views
exclude spots with zero weight 0 from lmfit toptable list in limmaGUI
Normalization limma limmaGUI Normalization limma limmaGUI
15.5 years ago Christine Voellenkle ▴ 90
0
votes
1
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1.6k
views
statistics for differential expression: adjusted p-values<0.05 BUT negative B-odds?
Normalization limma limmaGUI Normalization limma limmaGUI
updated 15.6 years ago by ▴ 320 • written 15.6 years ago by ▴ 90
0
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1
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1.1k
views
asMatrixWeights: weights of unexpected shape
GUI limma limmaGUI GUI limma limmaGUI
updated 15.6 years ago by ▴ 90 • written 15.6 years ago by 50k
0
votes
3
replies
1.4k
views
duplicate correlation of 4 "within array replicates" limmaGUI
GUI limma limmaGUI microRNA GUI limma limmaGUI microRNA
15.6 years ago Gordon Smyth 50k
0
votes
2
replies
2.2k
views
problem with tkrplot installation
limmaGUI limmaGUI
updated 15.8 years ago by 65k • written 15.8 years ago by ▴ 20
0
votes
2
replies
1.4k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI limmaGUI affylmGUI limmaGUI
updated 15.8 years ago by ▴ 90 • written 15.8 years ago by ▴ 140
0
votes
6
replies
2.2k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI limmaGUI affylmGUI limmaGUI
updated 15.8 years ago by ▴ 10 • written 15.8 years ago by ▴ 50
0
votes
0
replies
936
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Cancer affylmGUI limmaGUI Cancer affylmGUI limmaGUI
15.8 years ago Martin Morgan 25k
0
votes
2
replies
1.2k
views
limmaGUI: target file and spot file
limmaGUI limmaGUI
updated 15.8 years ago by ▴ 910 • written 15.8 years ago by ▴ 10
0
votes
0
replies
1.1k
views
error asMatrixWeights in LimmaGUI
Microarray limmaGUI Microarray limmaGUI
15.9 years ago bzzandrew@interfree.it ▴ 30
0
votes
1
reply
2.0k
views
Limma user’s guide example data sets
Microarray limma limmaGUI weaver Microarray limma limmaGUI weaver
updated 16.0 years ago by ▴ 130 • written 16.0 years ago by ▴ 450
0
votes
1
reply
1.3k
views
One-Color Agilent Data into Limma GUI
GO limma limmaGUI GO limma limmaGUI
updated 16.6 years ago by ★ 1.9k • written 16.6 years ago by ▴ 230
0
votes
2
replies
1.1k
views
help for limmaGUI
Microarray limmaGUI Microarray limmaGUI
updated 17.0 years ago by ★ 1.9k • written 17.0 years ago by ▴ 10
0
votes
3
replies
1.3k
views
limma: print-tip loess and empty spots
Normalization GO GUI limma limmaGUI Normalization GO GUI limma limmaGUI
17.0 years ago Gordon Smyth 50k
0
votes
0
replies
2.7k
views
[Bioc-devel] Tcl/TK pckage "Bwidget"
affylmGUI limmaGUI affylmGUI limmaGUI
17.1 years ago Keith Satterley ▴ 450
0
votes
1
reply
1.2k
views
[Bioc] Tcl/TK pckage "Bwidget"
limmaGUI limmaGUI
updated 17.1 years ago by ▴ 10 • written 17.1 years ago by 21k
0
votes
0
replies
929
views
Duplicated spots in limmaGUI
limmaGUI limmaGUI
17.1 years ago Gordon Smyth 50k
0
votes
1
reply
1.2k
views
Duplicated spots in limmaGUI
limmaGUI limmaGUI
updated 17.1 years ago by ▴ 500 • written 17.1 years ago by ▴ 80
0
votes
1
reply
1.1k
views
Limma - Design related problem: Unconnected design and time-treatment interaction estimation
Microarray Cancer limma limmaGUI Microarray Cancer limma limmaGUI
updated 17.3 years ago by ★ 6.0k • written 17.3 years ago by ▴ 90
0
votes
0
replies
1.2k
views
Computing a diference of 2 differences from a CpG Island experiment using LimmaGUI
Cancer limmaGUI Cancer limmaGUI
17.6 years ago Darlene Goldstein ▴ 230
0
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0
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1.0k
views
limma citations [was LimmaGUI for illumina data]
Annotation GUI Kidney limma affylmGUI limmaGUI Annotation GUI Kidney limma affylmGUI
18.0 years ago Gordon Smyth 50k
0
votes
0
replies
1000
views
LimmaGUI for illumina data
GUI affy limma affylmGUI limmaGUI beadarray GUI affy limma affylmGUI limmaGUI beadarray
18.0 years ago Mark Dunning ▴ 320
0
votes
0
replies
918
views
LimmaGUI for illumina data
GUI limma affylmGUI limmaGUI GUI limma affylmGUI limmaGUI
18.0 years ago Roy Williams ▴ 10
0
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1
reply
1.2k
views
reference design
limma limmaGUI oligo limma limmaGUI oligo
updated 18.0 years ago by ★ 6.0k • written 18.0 years ago by ▴ 30
0
votes
0
replies
1.2k
views
parameterization or contrast matrix?
limma limmaGUI oligo limma limmaGUI oligo
18.0 years ago bzzandrew@interfree.it ▴ 30
1
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3
replies
3.5k
views
Limma: correct calculation of B statistics (log odds)
Microarray Genetics limma limmaGUI Microarray Genetics limma limmaGUI
updated 18.1 years ago by ★ 1.9k • written 18.1 years ago by 50k
0
votes
3
replies
2.0k
views
Limma: correct calculation of B statistics (log odds)
limma limmaGUI limma limmaGUI
updated 18.1 years ago by ▴ 290 • written 18.1 years ago by ★ 1.9k
0
votes
1
reply
885
views
Different results Limma vs LimmaGUI?
limma limmaGUI limma limmaGUI
updated 18.1 years ago by ★ 1.9k • written 18.1 years ago by 50k
0
votes
0
replies
864
views
Different results Limma vs LimmaGUI?
limma limmaGUI limma limmaGUI
18.1 years ago J.delasHeras@ed.ac.uk ★ 1.9k
0
votes
3
replies
2.2k
views
Limma: background correction. Use or ignore?
Microarray Cancer affy limma limmaGUI Microarray Cancer affy limma limmaGUI
updated 18.1 years ago by ★ 1.9k • written 18.1 years ago by 50k
0
votes
2
replies
996
views
Limma: background correction. Use or ignore?
limmaGUI limmaGUI
updated 18.1 years ago by 65k • written 18.1 years ago by ★ 1.9k
50 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0
Thanks a lot!
Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150
Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa by Matthew Thornton ▴ 360
So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
Votes
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?
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