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Showing :
limmagui
•
reset
1
vote
2
replies
3.6k
views
Is voomByGroup available in limma?
limmaGUI
voom
3 months ago
richardallenfriedmanbrooklyn
▴ 30
2
votes
4
replies
1.1k
views
how limma work with continous variables
GordonSmyth
limmaGUI
lmFit
voom
updated 14 months ago by
Gordon Smyth
53k • written 14 months ago by
adR
▴ 40
1
vote
3
replies
909
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 18 months ago by
Gordon Smyth
53k • written 18 months ago by
Simran
• 0
0
votes
2
replies
775
views
limma model matrix questions
limmaGUI
limma
pairedsamples
19 months ago
whyw6948
• 0
0
votes
1
reply
663
views
Main effect on multiple comparisons in limma
limmaGUI
lim
MultipleComparison
multip
updated 19 months ago by
Gordon Smyth
53k • written 19 months ago by
roger.moreno.justicia
• 0
1
vote
4
replies
1.3k
views
limma design model for categorical variable
DNAMethylation
limmaGUI
biostatistics
limma
updated 20 months ago by
Gordon Smyth
53k • written 20 months ago by
Jitendra
▴ 10
1
vote
5
replies
1.9k
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 2.3 years ago by
Gordon Smyth
53k • written 2.3 years ago by
manuelsokolov
• 0
0
votes
1
reply
1.1k
views
Subtype specific differential expression analysis
R
limmaGUI
edgeR
limma
regutools
updated 2.4 years ago by
Gordon Smyth
53k • written 2.4 years ago by
qiz218591
• 0
1
vote
1
reply
1.3k
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr
limmaGUI
p-values
limma
updated 3.0 years ago by
James W. MacDonald
68k • written 3.0 years ago by
seahorsebox828
• 0
1
vote
2
replies
1.7k
views
Limma adj.p.value the same for many different p.values
limmaGUI
limma
adj.p.value
StatisticalMethod
3.0 years ago
walkerrh95
• 0
2
votes
6
replies
1.9k
views
Limma beta coefficient confidence intervals
limma
limmaGUI
beta
3.3 years ago
fluentin44
• 0
0
votes
1
reply
1.2k
views
Differential Expression Analysis-Input is DESeq Standardized
rnaseq
RNASeqData
limma
limmaGUI
updated 3.5 years ago by
Michael Love
43k • written 3.5 years ago by
sushimoto
• 0
3
votes
6
replies
12k
views
Unable to install "limma" package on RStudio
Bioconductor
limma
limmaGUI
3.6 years ago
jaydengitt
• 0
6
votes
4
replies
1.5k
views
Limma prametrization
limm
MathematicalBiology
limmaGUI
StatisticalMethod
3.7 years ago
Giovanni
• 0
0
votes
1
reply
2.0k
views
shiny account on mac not deploying server
limmagui
shiny
9.5 years ago
christopher.clarskon15
▴ 20
2
votes
5
replies
2.4k
views
NA coefficients values for samples with all zeros
limmagui
proteomics
9.9 years ago
vedran.franke
• 0
1
vote
5
replies
3.8k
views
Using Limma for proteomics (2D DIGE) datasets
Proteomics
limma
impute
limmaGUI
Proteomics
limma
impute
limmaGUI
updated 10.3 years ago by
sm
• 0 • written 16.0 years ago by
Tom Wenseleers
▴ 60
0
votes
0
replies
1.5k
views
ATTN: Clark Wilson filtering for present calls
limmaGUI
limmaGUI
15.5 years ago
Sinha, Mala
▴ 10
0
votes
2
replies
1.5k
views
problem detected during utilization of LimmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
updated 15.8 years ago by
Seth Falcon
★ 7.4k • written 15.8 years ago by
Susana Gomes
▴ 10
0
votes
4
replies
1.9k
views
getting normexp (and log2 transformed) values - not further-processed M values
Microarray
limma
limmaGUI
Microarray
limma
limmaGUI
16.0 years ago
adoty@umd.edu
▴ 30
0
votes
1
reply
1.5k
views
limmaGUI - venn-diagram & top-table anomaly?
limmaGUI
limmaGUI
updated 16.1 years ago by
Keith Satterley
▴ 450 • written 16.1 years ago by
D.Levin@warwick.ac.uk
▴ 10
0
votes
0
replies
1.2k
views
exclude spots with zero weight 0 from lmfit toptable list in limmaGUI
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
16.9 years ago
Christine Voellenkle
▴ 90
0
votes
1
reply
2.0k
views
statistics for differential expression: adjusted p-values<0.05 BUT negative B-odds?
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
updated 16.9 years ago by
Paolo Innocenti
▴ 320 • written 16.9 years ago by
Christine Voellenkle
▴ 90
0
votes
1
reply
1.5k
views
asMatrixWeights: weights of unexpected shape
GUI
limma
limmaGUI
GUI
limma
limmaGUI
updated 17.0 years ago by
Christine Voellenkle
▴ 90 • written 17.0 years ago by
Gordon Smyth
53k
0
votes
3
replies
1.7k
views
duplicate correlation of 4 "within array replicates" limmaGUI
GUI
limma
limmaGUI
microRNA
GUI
limma
limmaGUI
microRNA
17.0 years ago
Gordon Smyth
53k
0
votes
2
replies
2.6k
views
problem with tkrplot installation
limmaGUI
limmaGUI
updated 17.2 years ago by
James W. MacDonald
68k • written 17.2 years ago by
A Yulandi
▴ 20
0
votes
6
replies
2.8k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI
limmaGUI
affylmGUI
limmaGUI
updated 17.2 years ago by
ilhami visne
▴ 10 • written 17.2 years ago by
Deanne Taylor
▴ 50
0
votes
2
replies
1.8k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
affylmGUI
limmaGUI
affylmGUI
limmaGUI
updated 17.2 years ago by
Ross Lazarus
▴ 90 • written 17.2 years ago by
Jarno Tuimala
▴ 140
0
votes
0
replies
1.2k
views
Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Cancer
affylmGUI
limmaGUI
Cancer
affylmGUI
limmaGUI
17.2 years ago
Martin Morgan
25k
0
votes
2
replies
1.5k
views
limmaGUI: target file and spot file
limmaGUI
limmaGUI
updated 17.2 years ago by
Mark Cowley
▴ 910 • written 17.2 years ago by
Jamila Bernardi
▴ 10
0
votes
0
replies
1.4k
views
error asMatrixWeights in LimmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
17.3 years ago
bzzandrew@interfree.it
▴ 30
0
votes
1
reply
2.4k
views
Limma user’s guide example data sets
Microarray
limma
limmaGUI
weaver
Microarray
limma
limmaGUI
weaver
updated 17.4 years ago by
Wang, Jixin
▴ 130 • written 17.4 years ago by
Keith Satterley
▴ 450
0
votes
1
reply
1.6k
views
One-Color Agilent Data into Limma GUI
GO
limma
limmaGUI
GO
limma
limmaGUI
updated 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.0 years ago by
elliot harrison
▴ 230
0
votes
2
replies
1.5k
views
help for limmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
updated 18.4 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 18.4 years ago by
Ziping Zhang
▴ 10
0
votes
3
replies
1.7k
views
limma: print-tip loess and empty spots
Normalization
GO
GUI
limma
limmaGUI
Normalization
GO
GUI
limma
limmaGUI
18.4 years ago
Gordon Smyth
53k
0
votes
0
replies
3.2k
views
Tcl/TK package "Bwidget" when using limmaGUI or affylmGUI
limmaGUI
affylmGUI
updated 13 months ago by
Gordon Smyth
53k • written 18.5 years ago by
Keith Satterley
▴ 450
0
votes
1
reply
1.4k
views
[Bioc] Tcl/TK pckage "Bwidget"
limmaGUI
limmaGUI
updated 18.5 years ago by
Andris Jankevics
▴ 10 • written 18.5 years ago by
Sean Davis
21k
0
votes
0
replies
1.2k
views
Duplicated spots in limmaGUI
limmaGUI
limmaGUI
18.5 years ago
Gordon Smyth
53k
0
votes
1
reply
1.5k
views
Duplicated spots in limmaGUI
limmaGUI
limmaGUI
updated 18.5 years ago by
João Fadista
▴ 500 • written 18.5 years ago by
Wonjong Moon
▴ 80
0
votes
1
reply
1.3k
views
Limma - Design related problem: Unconnected design and time-treatment interaction estimation
Microarray
Cancer
limma
limmaGUI
Microarray
Cancer
limma
limmaGUI
updated 18.7 years ago by
Naomi Altman
★ 6.0k • written 18.7 years ago by
Serge Eifes
▴ 90
0
votes
0
replies
1.4k
views
Computing a diference of 2 differences from a CpG Island experiment using LimmaGUI
Cancer
limmaGUI
Cancer
limmaGUI
19.0 years ago
Darlene Goldstein
▴ 230
0
votes
0
replies
1.3k
views
limma citations [was LimmaGUI for illumina data]
Annotation
GUI
Kidney
limma
affylmGUI
limmaGUI
Annotation
GUI
Kidney
limma
affylmGUI
19.4 years ago
Gordon Smyth
53k
0
votes
0
replies
1.3k
views
LimmaGUI for illumina data
GUI
affy
limma
affylmGUI
limmaGUI
beadarray
GUI
affy
limma
affylmGUI
limmaGUI
beadarray
19.4 years ago
Mark Dunning
▴ 320
0
votes
0
replies
1.2k
views
LimmaGUI for illumina data
GUI
limma
affylmGUI
limmaGUI
GUI
limma
affylmGUI
limmaGUI
19.4 years ago
Roy Williams
▴ 10
0
votes
1
reply
1.5k
views
reference design
limma
limmaGUI
oligo
limma
limmaGUI
oligo
updated 19.4 years ago by
Naomi Altman
★ 6.0k • written 19.4 years ago by
bzzandrew@interfree.it
▴ 30
0
votes
0
replies
1.5k
views
parameterization or contrast matrix?
limma
limmaGUI
oligo
limma
limmaGUI
oligo
19.4 years ago
bzzandrew@interfree.it
▴ 30
0
votes
3
replies
2.5k
views
Limma: correct calculation of B statistics (log odds)
limma
limmaGUI
limma
limmaGUI
updated 19.5 years ago by
Wittner, Ben
▴ 290 • written 19.5 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k
1
vote
3
replies
4.4k
views
Limma: correct calculation of B statistics (log odds)
Microarray
Genetics
limma
limmaGUI
Microarray
Genetics
limma
limmaGUI
updated 19.5 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 19.5 years ago by
Gordon Smyth
53k
0
votes
1
reply
1.2k
views
Different results Limma vs LimmaGUI?
limma
limmaGUI
limma
limmaGUI
updated 19.5 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k • written 19.5 years ago by
Gordon Smyth
53k
0
votes
0
replies
1.1k
views
Different results Limma vs LimmaGUI?
limma
limmaGUI
limma
limmaGUI
19.5 years ago
J.delasHeras@ed.ac.uk
★ 1.9k
105 results • Page
1 of 3
Recent ...
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Comment: Help with defining groups
by
Phinney, Brett
▴ 10
I got it working , thank you!!!
Comment: Results with PON give more variants
by
ejafgdf4.ge.r.m
• 0
It s common to expect Mutect2 with a PON to be a strict subset of Mutect2 without it but seeing unique variants in Mutect2withPON isn t unu…
Comment: Check removeBatchEffect effectiveness
by
massimo
• 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package
by
ksankaran
• 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
ATpoint
★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Comment: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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