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Showing :
limmagui
•
reset
6
votes
4
replies
975
views
Limma prametrization
limm
MathematicalBiology
limmaGUI
StatisticalMethod
2.3 years ago
Giovanni
• 0
3
votes
6
replies
6.5k
views
Unable to install "limma" package on RStudio
Bioconductor
limma
limmaGUI
2.2 years ago
jaydengitt
• 0
2
votes
5
replies
1.7k
views
NA coefficients values for samples with all zeros
limmagui
proteomics
8.4 years ago
vedran.franke
• 0
2
votes
6
replies
1.1k
views
Limma beta coefficient confidence intervals
limma
limmaGUI
beta
22 months ago
fluentin44
• 0
1
vote
2
replies
956
views
Limma adj.p.value the same for many different p.values
limmaGUI
limma
adj.p.value
StatisticalMethod
19 months ago
walkerrh95
• 0
1
vote
4
replies
384
views
limma design model for categorical variable
DNAMethylation
limmaGUI
biostatistics
limma
updated 10 weeks ago by
Gordon Smyth
50k • written 11 weeks ago by
Jitendra
▴ 10
1
vote
1
reply
780
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr
limmaGUI
p-values
limma
updated 18 months ago by
James W. MacDonald
65k • written 18 months ago by
seahorsebox828
• 0
1
vote
5
replies
2.8k
views
Using Limma for proteomics (2D DIGE) datasets
Proteomics
limma
impute
limmaGUI
Proteomics
limma
impute
limmaGUI
updated 8.8 years ago by
sm
• 0 • written 14.5 years ago by
Tom Wenseleers
▴ 60
1
vote
3
replies
3.5k
views
Limma: correct calculation of B statistics (log odds)
Microarray
Genetics
limma
limmaGUI
Microarray
Genetics
limma
limmaGUI
updated 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.0 years ago by
Gordon Smyth
50k
1
vote
5
replies
1.0k
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 9 months ago by
Gordon Smyth
50k • written 9 months ago by
manuelsokolov
• 0
1
vote
3
replies
324
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 10 days ago by
Gordon Smyth
50k • written 16 days ago by
Simran
• 0
0
votes
0
replies
993
views
Re: LimmaGUI
Genetics
limma
limmaGUI
Genetics
limma
limmaGUI
20.2 years ago
James Wettenhall
▴ 1000
0
votes
1
reply
787
views
Setting the spacing between duplicates in limmaGUI
limmaGUI
limmaGUI
updated 20.5 years ago by
Gordon Smyth
50k • written 20.5 years ago by
Peter Baker CMIS, Indooroopilly
▴ 80
0
votes
0
replies
780
views
limmaGUI problem
limma
limmaGUI
limma
limmaGUI
20.1 years ago
Ron Ophir
▴ 80
0
votes
1
reply
954
views
LimmaGUI
limmaGUI
limmaGUI
updated 20.2 years ago by
James W. MacDonald
65k • written 20.2 years ago by
Binita Dutta
▴ 100
0
votes
0
replies
1.1k
views
BioC GUI development
Microarray
Genetics
GUI
affy
limma
affylmGUI
limmaGUI
Microarray
Genetics
GUI
affy
20.4 years ago
James Wettenhall
▴ 1000
0
votes
1
reply
1.5k
views
Analysis Interface Projects
limma
limmaGUI
limma
limmaGUI
updated 20.6 years ago by
Dave Waddell
▴ 160 • written 20.6 years ago by
James Wettenhall
▴ 1000
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
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.1 years ago by
Gordon Smyth
50k
0
votes
1
reply
794
views
limmaGUI and dupcor.series error
limmaGUI
limmaGUI
updated 19.9 years ago by
James Wettenhall
▴ 1000 • written 19.9 years ago by
Diego Diez
▴ 760
0
votes
0
replies
643
views
How to do normalization without backgroundsubtraction in limmaGUI or limma?
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
20.5 years ago
ying chen
▴ 30
0
votes
0
replies
790
views
limmaGUI & affylmGUI new features/fixes
Genetics
Normalization
limmaGUI
Genetics
Normalization
limmaGUI
19.9 years ago
James Wettenhall
▴ 1000
0
votes
0
replies
740
views
limmaGUI update
limma
limmaGUI
limma
limmaGUI
19.9 years ago
James Wettenhall
▴ 1000
0
votes
1
reply
1.0k
views
Re: Limma GUI exporting
Microarray
limma
affylmGUI
limmaGUI
Microarray
limma
affylmGUI
limmaGUI
19.8 years ago
James Wettenhall
▴ 1000
0
votes
2
replies
870
views
Problem loading files into limmaGUI
limma
limmaGUI
limma
limmaGUI
updated 19.8 years ago by
Gordon Smyth
50k • written 19.8 years ago by
Elva Diaz
▴ 10
0
votes
2
replies
1.3k
views
"limma" and "Imagene"
GUI
limma
limmaGUI
GUI
limma
limmaGUI
updated 19.8 years ago by
Gordon Smyth
50k • written 19.8 years ago by
Breuk102
▴ 50
0
votes
0
replies
865
views
limmaGUI_1.2.5 ImaGene fix
limmaGUI
limmaGUI
19.8 years ago
James Wettenhall
▴ 1000
0
votes
6
replies
1.4k
views
LimmaGUI Spot Quality
limmaGUI
limmaGUI
updated 19.8 years ago by
Gordon Smyth
50k • written 19.8 years ago by
Elizabeth Brooke-Powell
▴ 160
0
votes
1
reply
902
views
limmaGUI and Agilent output files!
Microarray
limmaGUI
Microarray
limmaGUI
updated 19.8 years ago by
James Wettenhall
▴ 1000 • written 19.8 years ago by
Adrian Peres
▴ 30
0
votes
0
replies
801
views
Re: limmaGUI and Agilent output files!
Microarray
limmaGUI
Microarray
limmaGUI
19.8 years ago
Elizabeth Brooke-Powell
▴ 160
0
votes
1
reply
845
views
LimmaGUI and limma
limma
limmaGUI
limma
limmaGUI
updated 19.7 years ago by
James Wettenhall
▴ 1000 • written 19.7 years ago by
Binita Dutta
▴ 100
0
votes
0
replies
1.0k
views
Re: affylmGUI
Genetics
affylmGUI
limmaGUI
convert
Genetics
affylmGUI
limmaGUI
convert
19.9 years ago
James Wettenhall
▴ 1000
0
votes
2
replies
887
views
How to do normalization without background subtraction in limmaGUI or limma?
Normalization
limmaGUI
Normalization
limmaGUI
updated 20.5 years ago by
Gordon Smyth
50k • written 20.5 years ago by
ying chen
▴ 40
0
votes
1
reply
1.6k
views
statistics for differential expression: adjusted p-values<0.05 BUT negative B-odds?
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
updated 15.5 years ago by
Paolo Innocenti
▴ 320 • written 15.5 years ago by
Christine Voellenkle
▴ 90
0
votes
1
reply
880
views
problem in limmaGUI with Heat Diagram
limma
limmaGUI
limma
limmaGUI
updated 19.4 years ago by
James Wettenhall
▴ 1000 • written 19.4 years ago by
Breuk102
▴ 50
0
votes
0
replies
741
views
gcrma in affylmGUI
gcrma
affylmGUI
limmaGUI
gcrma
affylmGUI
limmaGUI
19.9 years ago
James Wettenhall
▴ 1000
0
votes
0
replies
754
views
Limma and limmaGUI with Imagene files, problems/bugs report
Normalization
limma
limmaGUI
ASSIGN
Normalization
limma
limmaGUI
ASSIGN
19.4 years ago
Breuk102
▴ 50
0
votes
2
replies
948
views
Limma and limmaGUI with Imagene files, problems/bugs report
limma
limmaGUI
ASSIGN
limma
limmaGUI
ASSIGN
updated 19.4 years ago by
Gordon Smyth
50k • written 19.4 years ago by
Breuk102
▴ 50
0
votes
0
replies
1.2k
views
Problem with limmaGui loading- "Tcl/Tk Extension(s) Not Found"
limmaGUI
limmaGUI
19.1 years ago
Noam Drigues
▴ 10
0
votes
1
reply
778
views
Bioconductor or R courses
GO
limma
limmaGUI
GO
limma
limmaGUI
updated 19.1 years ago by
Seth Falcon
★ 7.4k • written 19.1 years ago by
Brooke-Powell, Elizabeth
▴ 170
0
votes
0
replies
647
views
LimmaGUI discards spots with no signal on one channel??
limmaGUI
limmaGUI
19.1 years ago
J.delasHeras@ed.ac.uk
★ 1.9k
0
votes
0
replies
890
views
MA plot (using fitted M values)
limmaGUI
limmaGUI
19.1 years ago
Choon Wei Wee
▴ 10
0
votes
4
replies
1.0k
views
LimmaGUI discards spots with no signal on one channel?
limma
limmaGUI
limma
limmaGUI
19.1 years ago • updated 19.0 years ago
Gordon Smyth
50k
0
votes
0
replies
520
views
Help with Duplicates
limmaGUI
limmaGUI
19.0 years ago
Brooke-Powell, Elizabeth
▴ 170
0
votes
9
replies
1.9k
views
Getting LimmaGUI to run
tkWidgets
widgetTools
limmaGUI
widgetInvoke
tkWidgets
widgetTools
limmaGUI
widgetInvoke
18.8 years ago
chris umbricht
▴ 110
0
votes
2
replies
850
views
Fwd: Getting LimmaGUI to run
limmaGUI
limmaGUI
updated 18.8 years ago by
Rob J Goedman
▴ 40 • written 18.8 years ago by
chris umbricht
▴ 110
0
votes
3
replies
1.2k
views
spot filtering
limma
limmaGUI
limma
limmaGUI
updated 18.8 years ago by
michael watson IAH-C
★ 3.4k • written 18.8 years ago by
Brooke-Powell, Elizabeth
▴ 170
0
votes
0
replies
1.3k
views
NA values
Normalization
Cancer
limma
gcrma
affyPLM
limmaGUI
plier
Normalization
Cancer
limma
gcrma
18.8 years ago
Brooke-Powell, Elizabeth
▴ 170
0
votes
0
replies
850
views
spot filtering
limma
limmaGUI
limma
limmaGUI
18.8 years ago
Gordon Smyth
50k
0
votes
0
replies
674
views
LimmaGUI Error
Normalization
GO
limmaGUI
Normalization
GO
limmaGUI
18.8 years ago
Brooke-Powell, Elizabeth
▴ 170
0
votes
0
replies
907
views
limmaGUI & affylmGUI wizards for Windows & bug fixes
Microarray
Genetics
cdf
affylmGUI
limmaGUI
Microarray
Genetics
cdf
affylmGUI
limmaGUI
19.9 years ago
James Wettenhall
▴ 1000
50 results • Page
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Replies
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! I'll review my code from top to bottom.
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
So basically you are using HTML markup to set your subscripts and whatnot, and then `element_markdown` does the rest.
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
Oh snap. Foiled again. Here it is with spaces & ge ; and & lt ;
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
Oh LOL. My markdown got edited by the markdown editor! What is between the p and 50 in the first case is the HTML for greater than or equal…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
Ah, good point. You could instead try ``` > library(ggtext) > keyvals.shape = c(rep(3,10), rep(2,8)) > names(keyvals.shape) = ifelse(keyva…
Votes
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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