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Showing :
limmagui
•
reset
1
vote
2
replies
3.6k
views
Is voomByGroup available in limma?
limmaGUI
voom
9 weeks ago
richardallenfriedmanbrooklyn
▴ 30
2
votes
4
replies
1.0k
views
how limma work with continous variables
GordonSmyth
limmaGUI
lmFit
voom
updated 12 months ago by
Gordon Smyth
52k • written 12 months ago by
adR
▴ 40
1
vote
3
replies
874
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 16 months ago by
Gordon Smyth
52k • written 16 months ago by
Simran
• 0
0
votes
2
replies
732
views
limma model matrix questions
limmaGUI
limma
pairedsamples
18 months ago
whyw6948
• 0
0
votes
1
reply
628
views
Main effect on multiple comparisons in limma
limmaGUI
lim
MultipleComparison
multip
updated 18 months ago by
Gordon Smyth
52k • written 18 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 18 months ago by
Gordon Smyth
52k • written 18 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 2.1 years ago by
Gordon Smyth
52k • written 2.1 years ago by
manuelsokolov
• 0
0
votes
1
reply
1.1k
views
Subtype specific differential expression analysis
R
limmaGUI
edgeR
limma
regutools
updated 2.3 years ago by
Gordon Smyth
52k • written 2.3 years ago by
qiz218591
• 0
1
vote
1
reply
1.2k
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr
limmaGUI
p-values
limma
updated 2.9 years ago by
James W. MacDonald
68k • written 2.9 years ago by
seahorsebox828
• 0
1
vote
2
replies
1.6k
views
Limma adj.p.value the same for many different p.values
limmaGUI
limma
adj.p.value
StatisticalMethod
2.9 years ago
walkerrh95
• 0
2
votes
6
replies
1.8k
views
Limma beta coefficient confidence intervals
limma
limmaGUI
beta
3.1 years ago
fluentin44
• 0
0
votes
1
reply
1.2k
views
Differential Expression Analysis-Input is DESeq Standardized
rnaseq
RNASeqData
limma
limmaGUI
updated 3.4 years ago by
Michael Love
43k • written 3.4 years ago by
sushimoto
• 0
3
votes
6
replies
12k
views
Unable to install "limma" package on RStudio
Bioconductor
limma
limmaGUI
3.5 years ago
jaydengitt
• 0
6
votes
4
replies
1.5k
views
Limma prametrization
limm
MathematicalBiology
limmaGUI
StatisticalMethod
3.6 years ago
Giovanni
• 0
0
votes
1
reply
2.0k
views
shiny account on mac not deploying server
limmagui
shiny
9.4 years ago
christopher.clarskon15
▴ 20
2
votes
5
replies
2.4k
views
NA coefficients values for samples with all zeros
limmagui
proteomics
9.7 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 10.1 years ago by
sm
• 0 • written 15.9 years ago by
Tom Wenseleers
▴ 60
0
votes
0
replies
1.4k
views
ATTN: Clark Wilson filtering for present calls
limmaGUI
limmaGUI
15.4 years ago
Sinha, Mala
▴ 10
0
votes
2
replies
1.4k
views
problem detected during utilization of LimmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
updated 15.7 years ago by
Seth Falcon
★ 7.4k • written 15.7 years ago by
Susana Gomes
▴ 10
0
votes
4
replies
1.8k
views
getting normexp (and log2 transformed) values - not further-processed M values
Microarray
limma
limmaGUI
Microarray
limma
limmaGUI
15.9 years ago
[email protected]
▴ 30
0
votes
1
reply
1.5k
views
limmaGUI - venn-diagram & top-table anomaly?
limmaGUI
limmaGUI
updated 16.0 years ago by
Keith Satterley
▴ 450 • written 16.0 years ago by
[email protected]
▴ 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
16.8 years ago
Christine Voellenkle
▴ 90
0
votes
1
reply
1.9k
views
statistics for differential expression: adjusted p-values<0.05 BUT negative B-odds?
Normalization
limma
limmaGUI
Normalization
limma
limmaGUI
updated 16.8 years ago by
Paolo Innocenti
▴ 320 • written 16.8 years ago by
Christine Voellenkle
▴ 90
0
votes
1
reply
1.4k
views
asMatrixWeights: weights of unexpected shape
GUI
limma
limmaGUI
GUI
limma
limmaGUI
updated 16.9 years ago by
Christine Voellenkle
▴ 90 • written 16.9 years ago by
Gordon Smyth
52k
0
votes
3
replies
1.7k
views
duplicate correlation of 4 "within array replicates" limmaGUI
GUI
limma
limmaGUI
microRNA
GUI
limma
limmaGUI
microRNA
16.9 years ago
Gordon Smyth
52k
0
votes
2
replies
2.6k
views
problem with tkrplot installation
limmaGUI
limmaGUI
updated 17.0 years ago by
James W. MacDonald
68k • written 17.0 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 17.1 years ago by
ilhami visne
▴ 10 • written 17.1 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 17.1 years ago by
Ross Lazarus
▴ 90 • written 17.1 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
17.1 years ago
Martin Morgan
25k
0
votes
2
replies
1.5k
views
limmaGUI: target file and spot file
limmaGUI
limmaGUI
updated 17.1 years ago by
Mark Cowley
▴ 910 • written 17.1 years ago by
Jamila Bernardi
▴ 10
0
votes
0
replies
1.4k
views
error asMatrixWeights in LimmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
17.2 years ago
[email protected]
▴ 30
0
votes
1
reply
2.4k
views
Limma user’s guide example data sets
Microarray
limma
limmaGUI
weaver
Microarray
limma
limmaGUI
weaver
updated 17.2 years ago by
Wang, Jixin
▴ 130 • written 17.2 years ago by
Keith Satterley
▴ 450
0
votes
1
reply
1.5k
views
One-Color Agilent Data into Limma GUI
GO
limma
limmaGUI
GO
limma
limmaGUI
updated 17.9 years ago by
[email protected]
★ 1.9k • written 17.9 years ago by
elliot harrison
▴ 230
0
votes
2
replies
1.5k
views
help for limmaGUI
Microarray
limmaGUI
Microarray
limmaGUI
updated 18.2 years ago by
[email protected]
★ 1.9k • written 18.2 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
18.2 years ago
Gordon Smyth
52k
0
votes
0
replies
3.1k
views
Tcl/TK package "Bwidget" when using limmaGUI or affylmGUI
limmaGUI
affylmGUI
updated 12 months ago by
Gordon Smyth
52k • written 18.3 years ago by
Keith Satterley
▴ 450
0
votes
1
reply
1.4k
views
[Bioc] Tcl/TK pckage "Bwidget"
limmaGUI
limmaGUI
updated 18.3 years ago by
Andris Jankevics
▴ 10 • written 18.3 years ago by
Sean Davis
21k
0
votes
0
replies
1.2k
views
Duplicated spots in limmaGUI
limmaGUI
limmaGUI
18.4 years ago
Gordon Smyth
52k
0
votes
1
reply
1.4k
views
Duplicated spots in limmaGUI
limmaGUI
limmaGUI
updated 18.4 years ago by
João Fadista
▴ 500 • written 18.4 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 18.5 years ago by
Naomi Altman
★ 6.0k • written 18.5 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
18.8 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
19.2 years ago
Gordon Smyth
52k
0
votes
0
replies
1.3k
views
LimmaGUI for illumina data
GUI
affy
limma
affylmGUI
limmaGUI
beadarray
GUI
affy
limma
affylmGUI
limmaGUI
beadarray
19.2 years ago
Mark Dunning
▴ 320
0
votes
0
replies
1.2k
views
LimmaGUI for illumina data
GUI
limma
affylmGUI
limmaGUI
GUI
limma
affylmGUI
limmaGUI
19.3 years ago
Roy Williams
▴ 10
0
votes
1
reply
1.4k
views
reference design
limma
limmaGUI
oligo
limma
limmaGUI
oligo
updated 19.3 years ago by
Naomi Altman
★ 6.0k • written 19.3 years ago by
[email protected]
▴ 30
0
votes
0
replies
1.5k
views
parameterization or contrast matrix?
limma
limmaGUI
oligo
limma
limmaGUI
oligo
19.3 years ago
[email protected]
▴ 30
0
votes
3
replies
2.4k
views
Limma: correct calculation of B statistics (log odds)
limma
limmaGUI
limma
limmaGUI
updated 19.3 years ago by
Wittner, Ben
▴ 290 • written 19.4 years ago by
[email protected]
★ 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 19.4 years ago by
[email protected]
★ 1.9k • written 19.4 years ago by
Gordon Smyth
52k
0
votes
1
reply
1.2k
views
Different results Limma vs LimmaGUI?
limma
limmaGUI
limma
limmaGUI
updated 19.4 years ago by
[email protected]
★ 1.9k • written 19.4 years ago by
Gordon Smyth
52k
0
votes
0
replies
1.1k
views
Different results Limma vs LimmaGUI?
limma
limmaGUI
limma
limmaGUI
19.4 years ago
[email protected]
★ 1.9k
105 results • Page
1 of 3
Recent ...
Replies
Answer: How to analyze Affy data, CEL files not available
by
gptonline.ai.website
• 0
This is a really helpful thread. For anyone looking for more assistance with similar issues, I've found that using ChatGPT at [GPTOnline.ai…
Comment: Are voomByGroup and voomLmFit compatible?
by
Gordon Smyth
52k
Your question is a bit cryptic, Rich. Are you trying to rewrite the voomByGroup() function yourself, to incorporate functionality that the …
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
by
Raya
• 0
Thank you for pointing this out James, it works now!
Answer: HMP_2019_t2d data origin
by
Levi Waldron
★ 1.1k
Dear @pleiramalls, @blann, sorry for the delay! We obtained fastq files for the HMP2 study from the HMP data portal (https://portal.hmpda…
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
by
ATpoint
★ 4.9k
I told you why, because you aggregate all cells into a single pseudobulk. You then need a pseudobulk per worm, but that assumes that in the…
Votes
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Can NanoString data be analyzed using DESeq2?
Comment: Are voomByGroup and voomLmFit compatible?
Comment: Updated Support Site Editor
Updated Support Site Editor
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