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 :
logFC
•
reset
0
votes
0
replies
613
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue
logFC
lrtest
MAST
17 months ago
Tadeoye
▴ 20
5
votes
6
replies
2.1k
views
LogFC values in edgeR - w/wo intercept
design.matrix
logFC
intercept
edgeR
model.matrix
2.4 years ago
JK Kim
▴ 20
2
votes
4
replies
1.5k
views
edgeR output doubts
logFC
edgeR
DifferentialExpression
scRNAseq
3.2 years ago
mbenegas
▴ 10
3
votes
4
replies
3.3k
views
Calculation of logFC in edgeR
edgeR
logfc
updated 3.7 years ago by
Kevin Blighe
★ 4.0k • written 3.7 years ago by
H
▴ 20
4
votes
2
replies
1.7k
views
Limma: how to interpret logFC for interaction contrast
limma
logFC
factor interaction
updated 4.3 years ago by
James W. MacDonald
67k • written 4.3 years ago by
Natalia
• 0
7
votes
6
replies
24k
views
Conversion of LogFC to FC
limma
logfc
fc
updated 4.6 years ago by
Gordon Smyth
51k • written 4.6 years ago by
nia
▴ 30
3
votes
1
reply
810
views
logFC in limma
limma
logFC
updated 4.8 years ago by
James W. MacDonald
67k • written 4.8 years ago by
gv
▴ 40
0
votes
0
replies
926
views
DEP package - Understanding the results table
dep
proteomics
logFC
5.0 years ago
rina
▴ 30
1
vote
5
replies
2.8k
views
Why the p value and logFC calculated by limma is so small
limma
volcanoplot
pvalue
logFC
updated 5.6 years ago by
Gordon Smyth
51k • written 5.6 years ago by
xingxd16
▴ 20
1
vote
3
replies
3.6k
views
the results of logFC is base e (log(FC,base=exp(1)) or base 2 (log2FC) ,is logFC same as log2FC in edgeR?
edger
limma
logfc
updated 20 months ago by
Gordon Smyth
51k • written 6.0 years ago by
ZihaoXing
• 0
2
votes
4
replies
2.6k
views
Why my limma DEG result in top Table all without significant meaning,showing logFC <1.5 or logFC>-1.5 ?
limma
toptable
deg
logfc
written 6.1 years ago by
Biomed
• 0
1
vote
4
replies
1.6k
views
Methylation EPIC annotation - the logFC values represented as boxplots
probe to gene id
logFC
illuminahumanmethylationepicanno.ilm10b2.hg19
limma contrast matrix
updated 6.5 years ago by
James W. MacDonald
67k • written 6.5 years ago by
jonellevillar
• 0
17
votes
14
replies
44k
views
LogFC: how do you determine the cutoff for differentially expressed genes?
rnaseq
differential gene expression
logfc
limma
R
updated 2.3 years ago by
OE
• 0 • written 7.2 years ago by
cms72
▴ 20
5
votes
5
replies
3.1k
views
Why the log fold change of some genes returned by edgeR is not compatible with their related FPKM value?
edgeR
logFC
FPKM
updated 8.0 years ago by
Gordon Smyth
51k • written 8.0 years ago by
Sara
▴ 10
0
votes
6
replies
2.7k
views
paired analysis using metagenomeSeq
metagenomeseq
logfc
paired samples
standard error
updated 2.2 years ago by
tom830979
• 0 • written 8.1 years ago by
manasishah86
▴ 30
0
votes
1
reply
1.6k
views
Question on fold change calculation for microarray data
logfc
limma
fold change
updated 8.1 years ago by
Gordon Smyth
51k • written 8.1 years ago by
Claudia
▴ 10
1
vote
5
replies
14k
views
Limma LogFC hand calculation
limma
logfc
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
cookm346
• 0
4
votes
9
replies
2.6k
views
LIMMA gives different logFC
limma
LogFC
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
beginner
• 0
9
votes
7
replies
1.9k
views
EdgeR returns small logFC values when using GLM approach
edger
glm
logfc
8.5 years ago
gergely.zsuzsa.n
• 0
7
votes
2
replies
6.1k
views
What is logFC and "B" in methylation analysis ??
limma
champ
logfc
updated 8.7 years ago by
Aaron Lun
★ 28k • written 8.7 years ago by
AST
▴ 60
1
vote
6
replies
6.6k
views
fold change calculation in edger
edger
normalization
logfc
updated 8.8 years ago by
Michael Love
42k • written 8.8 years ago by
tonja.r
▴ 80
4
votes
4
replies
3.6k
views
Determining direction of logFC in limma
logFC
limma
8.9 years ago
pt2395
• 0
1
vote
1
reply
1.9k
views
Data handling in DESeq2
deseq2
data handling
comparing more than two groups
normalization
logfc
updated 8.9 years ago by
Michael Love
42k • written 8.9 years ago by
bioboy
• 0
1
vote
3
replies
1.9k
views
confusing output from EdgeR Glm
edger
logfc
pvalue
updated 9.1 years ago by
Aaron Lun
★ 28k • written 9.1 years ago by
amoltej
▴ 10
2
votes
2
replies
2.5k
views
limma: Using log2 fold changes as input for a linear model fit
limma
logfc
lmfit
updated 9.3 years ago by
Aaron Lun
★ 28k • written 9.3 years ago by
Moritz E. Beber
▴ 10
1
vote
8
replies
3.9k
views
Intepretation of RUVseq/edgeR logFC
RUVseq
logFC
edgeR
9.4 years ago
Marie
• 0
5
votes
4
replies
22k
views
Report and compare log2FC vs FC
deseq2
logfc
updated 9.5 years ago by
smoorthie
▴ 10 • written 9.5 years ago by
Catalina Aguilar Hurtado
▴ 90
2
votes
1
reply
3.9k
views
Difference between DESeq2 versions and explanation of betaPrior = False and padj
DESeq2
LogFC
Adjusted pvalue
updated 9.7 years ago by
Michael Love
42k • written 9.7 years ago by
madal
• 0
0
votes
3
replies
3.8k
views
[limma - v. 17 June 2014] Log2 or not to log2 the data? (Agilent single-channel microarray data)
limma
logFC
normalizeBetweenArrays()
9.9 years ago
FAVI
• 0
29 results • Page
1 of 1
Recent ...
Replies
Answer: Annotation for EPICv2
by
James W. MacDonald
67k
The CpG you point out is in the intronic region of SHANK2, so will not be in any of the locations you have in your barplot. ![enter ima…
Comment: WGCNA
by
Lluís Revilla Sancho
▴ 750
This is a question of a package outside Bioconductor, it would be best to ask to the maintainer. But i think he moved to industry and the w…
Comment: dmpFinder for other objects
by
James W. MacDonald
67k
Yes, but you should probably use M-values instead of betas (convert using `logit2`). However, `dmpFinder` is just a way to allow people to…
Comment: Highly DE genes but small count difference within conditions
by
Michael Love
42k
This last problem, I don't know how to help with, I think there's high variability here and not many degrees of freedom to overcome that
Answer: [DESeq2] Introduce a bias in DESeq2
by
Michael Love
42k
This is often called an offset in statistical modeling. We have some support site posts about how to do this in DESeq2. Search for posts me…
Votes
Answer: Highly DE genes but small count difference within conditions
Answer: edgeR 4.2.1 compression bug: a minimally reproducible snippet
Trying to use enrichGO
Answer: edgeR 4.2.1 compression bug: a minimally reproducible snippet
Answer: dmpFinder for other objects
Awards
• All
Popular Question
to
Gordon Smyth
51k
Scholar
to
ATpoint
★ 4.5k
Popular Question
to
Andrew_McDavid
▴ 270
Scholar
to
Ryan C. Thompson
★ 7.9k
Popular Question
to
Basti
▴ 780
Locations
• All
United States,
5 minutes ago
France,
6 minutes ago
United Kingdom,
8 minutes ago
Japan,
9 minutes ago
United States,
9 minutes ago
Traffic: 826 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