Showing : limmagui • reset
0
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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
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6
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2.2k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI limmaGUI affylmGUI limmaGUI
updated 15.7 years ago by ▴ 10 • written 15.7 years ago by ▴ 50
0
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9
replies
1.9k
views
Getting LimmaGUI to run
tkWidgets widgetTools limmaGUI widgetInvoke tkWidgets widgetTools limmaGUI widgetInvoke
18.8 years ago chris umbricht ▴ 110
1
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5
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2.8k
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Using Limma for proteomics (2D DIGE) datasets
Proteomics limma impute limmaGUI Proteomics limma impute limmaGUI
updated 8.8 years ago by • 0 • written 14.5 years ago by ▴ 60
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4
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1.0k
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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
3
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6
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6.5k
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Unable to install "limma" package on RStudio
Bioconductor limma limmaGUI
2.2 years ago jaydengitt • 0
0
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3
replies
1.4k
views
LimmaGUI Error
Normalization GO limmaGUI ASSIGN Normalization GO limmaGUI ASSIGN
18.7 years ago Brooke-Powell, Elizabeth ▴ 170
0
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3
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2.0k
views
Limma: correct calculation of B statistics (log odds)
limma limmaGUI limma limmaGUI
updated 18.0 years ago by ▴ 290 • written 18.0 years ago by ★ 1.9k
0
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2
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1.3k
views
"limma" and "Imagene"
GUI limma limmaGUI GUI limma limmaGUI
updated 19.8 years ago by 50k • written 19.8 years ago by ▴ 50
0
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2
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948
views
Limma and limmaGUI with Imagene files, problems/bugs report
limma limmaGUI ASSIGN limma limmaGUI ASSIGN
updated 19.4 years ago by 50k • written 19.4 years ago by ▴ 50
0
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3
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1.3k
views
limma: print-tip loess and empty spots
Normalization GO GUI limma limmaGUI Normalization GO GUI limma limmaGUI
16.9 years ago Gordon Smyth 50k
0
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3
replies
1.2k
views
spot filtering
limma limmaGUI limma limmaGUI
updated 18.8 years ago by ★ 3.4k • written 18.8 years ago by ▴ 170
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votes
3
replies
1.3k
views
duplicate correlation of 4 "within array replicates" limmaGUI
GUI limma limmaGUI microRNA GUI limma limmaGUI microRNA
15.6 years ago • updated 15.5 years ago Gordon Smyth 50k
0
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6
replies
1.4k
views
LimmaGUI Spot Quality
limmaGUI limmaGUI
updated 19.8 years ago by 50k • written 19.8 years ago by ▴ 160
0
votes
2
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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
3
replies
321
views
Why is my gene not significantly differentially expressed?
limmaGUI edgeR limma
updated 10 days ago by 50k • written 15 days ago by • 0
0
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2
replies
2.3k
views
limma, spot and technical replicates
Genetics limma limmaGUI Genetics limma limmaGUI
updated 18.4 years ago by ▴ 150 • written 18.5 years ago by ▴ 110
0
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2
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870
views
Problem loading files into limmaGUI
limma limmaGUI limma limmaGUI
updated 19.8 years ago by 50k • written 19.8 years ago by ▴ 10
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 ★ 1.9k • written 18.0 years ago by 50k
0
votes
2
replies
792
views
gcrma in affylmGUI
gcrma limmaGUI gcrma limmaGUI
updated 19.9 years ago by ▴ 1000 • written 19.9 years ago by ▴ 90
0
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2
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1.2k
views
limma Normalization question
Genetics Normalization limma GeneSpring limmaGUI Genetics Normalization limma GeneSpring
18.4 years ago Gordon Smyth 50k
0
votes
2
replies
1.1k
views
help for limmaGUI
Microarray limmaGUI Microarray limmaGUI
updated 16.9 years ago by ★ 1.9k • written 16.9 years ago by ▴ 10
0
votes
2
replies
1.4k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI limmaGUI affylmGUI limmaGUI
updated 15.7 years ago by ▴ 90 • written 15.7 years ago by ▴ 140
0
votes
2
replies
1.1k
views
limmaGUI: Warning: ActiveTcl could not be found...
limmaGUI limmaGUI
updated 20.5 years ago by ▴ 770 • written 20.5 years ago by ▴ 1000
0
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2
replies
2.2k
views
problem with tkrplot installation
limmaGUI limmaGUI
updated 15.7 years ago by 65k • written 15.7 years ago by ▴ 20
0
votes
1
reply
902
views
limmaGUI and Agilent output files!
Microarray limmaGUI Microarray limmaGUI
updated 19.8 years ago by ▴ 1000 • written 19.8 years ago by ▴ 30
0
votes
1
reply
787
views
Setting the spacing between duplicates in limmaGUI
limmaGUI limmaGUI
updated 20.5 years ago by 50k • written 20.5 years ago by ▴ 80
0
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1
reply
954
views
LimmaGUI
limmaGUI limmaGUI
updated 20.2 years ago by 65k • written 20.2 years ago by ▴ 100
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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
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1
reply
844
views
LimmaGUI and limma
limma limmaGUI limma limmaGUI
updated 19.7 years ago by ▴ 1000 • written 19.7 years ago by ▴ 100
0
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1
reply
2.0k
views
Limma user’s guide example data sets
Microarray limma limmaGUI weaver Microarray limma limmaGUI weaver
updated 15.9 years ago by ▴ 130 • written 15.9 years ago by ▴ 450
0
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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
1
reply
1.2k
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
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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
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1
reply
1.1k
views
asMatrixWeights: weights of unexpected shape
GUI limma limmaGUI GUI limma limmaGUI
updated 15.5 years ago by ▴ 90 • written 15.5 years ago by 50k
0
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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 ▴ 320 • written 15.5 years ago by ▴ 90
0
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1
reply
1.1k
views
Duplicated spots in limmaGUI
limmaGUI limmaGUI
updated 17.0 years ago by ▴ 500 • written 17.0 years ago by ▴ 80
0
votes
1
reply
1.1k
views
[Bioc] Tcl/TK pckage "Bwidget"
limmaGUI limmaGUI
updated 17.0 years ago by ▴ 10 • written 17.0 years ago by 21k
0
votes
1
reply
1.1k
views
Re-scaling MA plot Y axis in LimmaGUI?
GUI limma limmaGUI GUI limma limmaGUI
18.4 years ago J.delasHeras@ed.ac.uk ★ 1.9k
0
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1
reply
1.1k
views
reference design
limma limmaGUI oligo limma limmaGUI oligo
updated 18.0 years ago by ★ 6.0k • written 18.0 years ago by ▴ 30
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votes
2
replies
885
views
How to do normalization without background subtraction in limmaGUI or limma?
Normalization limmaGUI Normalization limmaGUI
updated 20.5 years ago by 50k • written 20.5 years ago by ▴ 40
0
votes
1
reply
778
views
Bioconductor or R courses
GO limma limmaGUI GO limma limmaGUI
updated 19.1 years ago by ★ 7.4k • written 19.1 years ago by ▴ 170
0
votes
1
reply
794
views
limmaGUI and dupcor.series error
limmaGUI limmaGUI
updated 19.9 years ago by ▴ 1000 • written 19.9 years ago by ▴ 760
0
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1
reply
1.0k
views
Limma - Design related problem: Unconnected design and time-treatment interaction estimation
Microarray Cancer limma limmaGUI Microarray Cancer limma limmaGUI
updated 17.2 years ago by ★ 6.0k • written 17.2 years ago by ▴ 90
0
votes
2
replies
850
views
Fwd: Getting LimmaGUI to run
limmaGUI limmaGUI
updated 18.8 years ago by ▴ 40 • written 18.8 years ago by ▴ 110
0
votes
2
replies
1.2k
views
limmaGUI: Warning: ActiveTcl could not be found....
limmaGUI limmaGUI
updated 20.5 years ago by ▴ 810 • written 20.5 years ago by ▴ 770
0
votes
1
reply
880
views
problem in limmaGUI with Heat Diagram
limma limmaGUI limma limmaGUI
updated 19.4 years ago by ▴ 1000 • written 19.4 years ago by ▴ 50
0
votes
1
reply
1.5k
views
Analysis Interface Projects
limma limmaGUI limma limmaGUI
updated 20.6 years ago by ▴ 160 • written 20.6 years ago by ▴ 1000
0
votes
2
replies
977
views
Limma: background correction. Use or ignore?
limmaGUI limmaGUI
updated 18.1 years ago by 65k • written 18.1 years ago by ★ 1.9k
0
votes
1
reply
865
views
Different results Limma vs LimmaGUI?
limma limmaGUI limma limmaGUI
updated 18.0 years ago by ★ 1.9k • written 18.0 years ago by 50k
50 results • Page 1 of 1
Recent ...
Replies
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre
Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k
Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…
Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Votes
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
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
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