Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
limmagui
•
reset
0
votes
2
replies
235
views
limma model matrix questions
limmaGUI
limma
pairedsamples
5 weeks ago
whyw6948
• 0
0
votes
1
reply
166
views
Main effect on multiple comparisons in limma
limmaGUI
lim
MultipleComparison
multip
updated 5 weeks ago by
Gordon Smyth
50k • written 5 weeks ago by
roger.moreno.justicia
• 0
1
vote
4
replies
287
views
limma design model for categorical variable
DNAMethylation
limmaGUI
biostatistics
limma
updated 6 weeks ago by
Gordon Smyth
50k • written 7 weeks ago by
Jitendra
▴ 10
1
vote
5
replies
942
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 8 months ago by
Gordon Smyth
50k • written 9 months ago by
manuelsokolov
• 0
0
votes
1
reply
585
views
Subtype specific differential expression analysis
R
limmaGUI
edgeR
limma
regutools
updated 11 months ago by
Gordon Smyth
50k • written 11 months ago by
qiz218591
• 0
1
vote
1
reply
743
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr
limmaGUI
p-values
limma
updated 17 months ago by
James W. MacDonald
65k • written 17 months ago by
seahorsebox828
• 0
1
vote
2
replies
902
views
Limma adj.p.value the same for many different p.values
limmaGUI
limma
adj.p.value
StatisticalMethod
18 months ago
walkerrh95
• 0
2
votes
6
replies
1.0k
views
Limma beta coefficient confidence intervals
limma
limmaGUI
beta
21 months ago
fluentin44
• 0
0
votes
1
reply
736
views
Differential Expression Analysis-Input is DESeq Standardized
rnaseq
RNASeqData
limma
limmaGUI
updated 24 months ago by
Michael Love
41k • written 24 months ago by
sushimoto
• 0
3
votes
6
replies
6.2k
views
Unable to install "limma" package on RStudio
Bioconductor
limma
limmaGUI
2.1 years ago
jaydengitt
• 0
6
votes
4
replies
945
views
Limma prametrization
limm
MathematicalBiology
limmaGUI
StatisticalMethod
2.2 years ago
Giovanni
• 0
0
votes
1
reply
1.5k
views
shiny account on mac not deploying server
limmagui
shiny
8.0 years ago
christopher.clarskon15
▴ 20
2
votes
5
replies
1.7k
views
NA coefficients values for samples with all zeros
limmagui
proteomics
8.3 years ago
vedran.franke
• 0
0
votes
0
replies
1.2k
views
ATTN: Clark Wilson filtering for present calls
limmaGUI
limmaGUI
14.0 years ago
Sinha, Mala
▴ 10
0
votes
2
replies
1.1k
views
problem detected during utilization of LimmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
updated 14.3 years ago by
Seth Falcon
★ 7.4k • written 14.3 years ago by
Susana Gomes
▴ 10
1
vote
5
replies
2.7k
views
Using Limma for proteomics (2D DIGE) datasets
Proteomics
limma
impute
limmaGUI
Proteomics
limma
impute
limmaGUI
updated 8.7 years ago by
sm
• 0 • written 14.5 years ago by
Tom Wenseleers
▴ 60
0
votes
4
replies
1.4k
views
getting normexp (and log2 transformed) values - not further-processed M values
Microarray
limma
limmaGUI
Microarray
limma
limmaGUI
14.5 years ago
adoty@umd.edu
▴ 30
0
votes
1
reply
1.1k
views
limmaGUI - venn-diagram & top-table anomaly?
limmaGUI
limmaGUI
updated 14.6 years ago by
Keith Satterley
▴ 450 • written 14.6 years ago by
D.Levin@warwick.ac.uk
▴ 10
0
votes
0
replies
896
views
exclude spots with zero weight 0 from lmfit toptable list in limmaGUI
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
15.3 years ago
Christine Voellenkle
▴ 90
0
votes
1
reply
1.5k
views
statistics for differential expression: adjusted p-values<0.05 BUT negative B-odds?
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
updated 15.4 years ago by
Paolo Innocenti
▴ 320 • written 15.4 years ago by
Christine Voellenkle
▴ 90
0
votes
1
reply
1.1k
views
asMatrixWeights: weights of unexpected shape
GUI
limma
limmaGUI
GUI
limma
limmaGUI
updated 15.5 years ago by
Christine Voellenkle
▴ 90 • written 15.5 years ago by
Gordon Smyth
50k
0
votes
3
replies
1.3k
views
duplicate correlation of 4 "within array replicates" limmaGUI
GUI
limma
limmaGUI
microRNA
GUI
limma
limmaGUI
microRNA
15.5 years ago
Gordon Smyth
50k
0
votes
2
replies
2.2k
views
problem with tkrplot installation
limmaGUI
limmaGUI
updated 15.6 years ago by
James W. MacDonald
65k • written 15.6 years ago by
A Yulandi
▴ 20
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
Ross Lazarus
▴ 90 • written 15.7 years ago by
Jarno Tuimala
▴ 140
0
votes
6
replies
2.2k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI
limmaGUI
affylmGUI
limmaGUI
updated 15.7 years ago by
ilhami visne
▴ 10 • written 15.7 years ago by
Deanne Taylor
▴ 50
0
votes
0
replies
904
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Cancer
affylmGUI
limmaGUI
Cancer
affylmGUI
limmaGUI
15.7 years ago
Martin Morgan
25k
0
votes
2
replies
1.2k
views
limmaGUI: target file and spot file
limmaGUI
limmaGUI
updated 15.7 years ago by
Mark Cowley
▴ 910 • written 15.7 years ago by
Jamila Bernardi
▴ 10
0
votes
0
replies
1.1k
views
error asMatrixWeights in LimmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
15.8 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 15.8 years ago by
Wang, Jixin
▴ 130 • written 15.8 years ago by
Keith Satterley
▴ 450
0
votes
1
reply
1.2k
views
One-Color Agilent Data into Limma GUI
GO
limma
limmaGUI
GO
limma
limmaGUI
updated 16.5 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 16.5 years ago by
elliot harrison
▴ 230
0
votes
2
replies
1.1k
views
help for limmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
updated 16.8 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 16.8 years ago by
Ziping Zhang
▴ 10
0
votes
3
replies
1.2k
views
limma: print-tip loess and empty spots
Normalization
GO
GUI
limma
limmaGUI
Normalization
GO
GUI
limma
limmaGUI
16.8 years ago
Gordon Smyth
50k
0
votes
0
replies
2.6k
views
[Bioc-devel] Tcl/TK pckage "Bwidget"
affylmGUI
limmaGUI
affylmGUI
limmaGUI
16.9 years ago
Keith Satterley
▴ 450
0
votes
1
reply
1.1k
views
[Bioc] Tcl/TK pckage "Bwidget"
limmaGUI
limmaGUI
updated 16.9 years ago by
Andris Jankevics
▴ 10 • written 16.9 years ago by
Sean Davis
21k
0
votes
0
replies
902
views
Duplicated spots in limmaGUI
limmaGUI
limmaGUI
17.0 years ago
Gordon Smyth
50k
0
votes
1
reply
1.1k
views
Duplicated spots in limmaGUI
limmaGUI
limmaGUI
updated 17.0 years ago by
João Fadista
▴ 500 • written 17.0 years ago by
Wonjong Moon
▴ 80
0
votes
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 17.1 years ago by
Naomi Altman
★ 6.0k • written 17.1 years ago by
Serge Eifes
▴ 90
0
votes
0
replies
1.1k
views
Computing a diference of 2 differences from a CpG Island experiment using LimmaGUI
Cancer
limmaGUI
Cancer
limmaGUI
17.4 years ago
Darlene Goldstein
▴ 230
0
votes
0
replies
976
views
limma citations [was LimmaGUI for illumina data]
Annotation
GUI
Kidney
limma
affylmGUI
limmaGUI
Annotation
GUI
Kidney
limma
affylmGUI
17.8 years ago
Gordon Smyth
50k
0
votes
0
replies
961
views
LimmaGUI for illumina data
GUI
affy
limma
affylmGUI
limmaGUI
beadarray
GUI
affy
limma
affylmGUI
limmaGUI
beadarray
17.8 years ago
Mark Dunning
▴ 320
0
votes
0
replies
894
views
LimmaGUI for illumina data
GUI
limma
affylmGUI
limmaGUI
GUI
limma
affylmGUI
limmaGUI
17.9 years ago
Roy Williams
▴ 10
0
votes
1
reply
1.1k
views
reference design
limma
limmaGUI
oligo
limma
limmaGUI
oligo
updated 17.9 years ago by
Naomi Altman
★ 6.0k • written 17.9 years ago by
bzzandrew@interfree.it
▴ 30
0
votes
0
replies
1.2k
views
parameterization or contrast matrix?
limma
limmaGUI
oligo
limma
limmaGUI
oligo
17.9 years ago
bzzandrew@interfree.it
▴ 30
1
vote
3
replies
3.4k
views
Limma: correct calculation of B statistics (log odds)
Microarray
Genetics
limma
limmaGUI
Microarray
Genetics
limma
limmaGUI
updated 17.9 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 17.9 years ago by
Gordon Smyth
50k
0
votes
3
replies
2.0k
views
Limma: correct calculation of B statistics (log odds)
limma
limmaGUI
limma
limmaGUI
updated 17.9 years ago by
Wittner, Ben
▴ 290 • written 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k
0
votes
1
reply
846
views
Different results Limma vs LimmaGUI?
limma
limmaGUI
limma
limmaGUI
updated 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.0 years ago by
Gordon Smyth
50k
0
votes
0
replies
837
views
Different results Limma vs LimmaGUI?
limma
limmaGUI
limma
limmaGUI
18.0 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 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.0 years ago by
Gordon Smyth
50k
0
votes
2
replies
958
views
Limma: background correction. Use or ignore?
limmaGUI
limmaGUI
updated 18.0 years ago by
James W. MacDonald
65k • written 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k
0
votes
0
replies
911
views
Request for users of limmaGUI, affylmGUI, JSM2005 or IBC2004 microarray course websites or my R-Tcl/Tk examples
affylmGUI
limmaGUI
affylmGUI
limmaGUI
18.2 years ago
James Wettenhall
▴ 1000
50 results • Page
1 of 1
Recent ...
Replies
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Awards
• All
Popular Question
to
michael.s
• 0
Popular Question
to
James W. MacDonald
65k
Popular Question
to
Pierre Lindenbaum
▴ 10
Popular Question
to
Gordon Smyth
50k
Popular Question
to
Jenny Drnevich
★ 2.0k
Locations
• All
United States,
8 minutes ago
United States,
15 minutes ago
United States,
33 minutes ago
United States,
46 minutes ago
United States,
48 minutes ago
Traffic: 871 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6