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
772
views
How to extract P-Values and LogFC from lrTest in MAST?
pvalue
logFC
lrtest
MAST
22 months ago
Tadeoye
▴ 20
5
votes
6
replies
2.4k
views
LogFC values in edgeR - w/wo intercept
design.matrix
logFC
intercept
edgeR
model.matrix
2.8 years ago
JK Kim
▴ 20
2
votes
4
replies
1.7k
views
edgeR output doubts
logFC
edgeR
DifferentialExpression
scRNAseq
3.5 years ago
mbenegas
▴ 10
2
votes
4
replies
2.7k
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 6.5 years ago by
Biomed
• 0
3
votes
4
replies
3.6k
views
Calculation of logFC in edgeR
edgeR
logfc
updated 4.1 years ago by
Kevin Blighe
★ 4.0k • written 4.1 years ago by
H
▴ 20
4
votes
2
replies
1.9k
views
Limma: how to interpret logFC for interaction contrast
limma
logFC
factor interaction
updated 4.7 years ago by
James W. MacDonald
68k • written 4.7 years ago by
Natalia
• 0
7
votes
6
replies
27k
views
Conversion of LogFC to FC
limma
logfc
fc
updated 5.0 years ago by
Gordon Smyth
52k • written 5.0 years ago by
nia
▴ 30
3
votes
1
reply
887
views
logFC in limma
limma
logFC
updated 5.1 years ago by
James W. MacDonald
68k • written 5.1 years ago by
gv
▴ 40
0
votes
0
replies
1.0k
views
DEP package - Understanding the results table
dep
proteomics
logFC
5.4 years ago
rina
▴ 30
1
vote
5
replies
3.1k
views
Why the p value and logFC calculated by limma is so small
limma
volcanoplot
pvalue
logFC
updated 6.0 years ago by
Gordon Smyth
52k • written 6.0 years ago by
xingxd16
▴ 20
1
vote
3
replies
4.1k
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 2.1 years ago by
Gordon Smyth
52k • written 6.4 years ago by
ZihaoXing
• 0
1
vote
4
replies
1.7k
views
Methylation EPIC annotation - the logFC values represented as boxplots
probe to gene id
logFC
illuminahumanmethylationepicanno.ilm10b2.hg19
limma contrast matrix
updated 6.9 years ago by
James W. MacDonald
68k • written 6.9 years ago by
jonellevillar
• 0
17
votes
14
replies
48k
views
LogFC: how do you determine the cutoff for differentially expressed genes?
rnaseq
differential gene expression
logfc
limma
R
updated 2.7 years ago by
OE
• 0 • written 7.6 years ago by
cms72
▴ 20
5
votes
5
replies
3.4k
views
Why the log fold change of some genes returned by edgeR is not compatible with their related FPKM value?
edgeR
logFC
FPKM
updated 8.4 years ago by
Gordon Smyth
52k • written 8.4 years ago by
Sara
▴ 20
0
votes
6
replies
2.9k
views
paired analysis using metagenomeSeq
metagenomeseq
logfc
paired samples
standard error
updated 2.6 years ago by
tom830979
• 0 • written 8.4 years ago by
manasishah86
▴ 30
0
votes
1
reply
1.7k
views
Question on fold change calculation for microarray data
logfc
limma
fold change
updated 8.5 years ago by
Gordon Smyth
52k • written 8.5 years ago by
Claudia
▴ 10
1
vote
5
replies
14k
views
Limma LogFC hand calculation
limma
logfc
updated 8.8 years ago by
Aaron Lun
★ 28k • written 8.8 years ago by
cookm346
• 0
4
votes
9
replies
2.8k
views
LIMMA gives different logFC
limma
LogFC
updated 8.8 years ago by
Aaron Lun
★ 28k • written 8.8 years ago by
beginner
• 0
9
votes
7
replies
2.1k
views
EdgeR returns small logFC values when using GLM approach
edger
glm
logfc
8.9 years ago
gergely.zsuzsa.n
• 0
7
votes
2
replies
6.5k
views
What is logFC and "B" in methylation analysis ??
limma
champ
logfc
updated 9.1 years ago by
Aaron Lun
★ 28k • written 9.1 years ago by
AST
▴ 60
1
vote
6
replies
6.8k
views
fold change calculation in edger
edger
normalization
logfc
updated 9.1 years ago by
Michael Love
43k • written 9.1 years ago by
tonja.r
▴ 80
4
votes
4
replies
3.9k
views
Determining direction of logFC in limma
logFC
limma
9.3 years ago
pt2395
• 0
1
vote
1
reply
2.0k
views
Data handling in DESeq2
deseq2
data handling
comparing more than two groups
normalization
logfc
updated 9.3 years ago by
Michael Love
43k • written 9.3 years ago by
bioboy
• 0
1
vote
3
replies
2.0k
views
confusing output from EdgeR Glm
edger
logfc
pvalue
updated 9.5 years ago by
Aaron Lun
★ 28k • written 9.5 years ago by
amoltej
▴ 10
2
votes
2
replies
2.7k
views
limma: Using log2 fold changes as input for a linear model fit
limma
logfc
lmfit
updated 9.7 years ago by
Aaron Lun
★ 28k • written 9.7 years ago by
Moritz E. Beber
▴ 10
1
vote
8
replies
4.0k
views
Intepretation of RUVseq/edgeR logFC
RUVseq
logFC
edgeR
9.8 years ago
Marie
• 0
5
votes
4
replies
23k
views
Report and compare log2FC vs FC
deseq2
logfc
updated 9.9 years ago by
smoorthie
▴ 10 • written 9.9 years ago by
Catalina Aguilar Hurtado
▴ 90
2
votes
1
reply
4.0k
views
Difference between DESeq2 versions and explanation of betaPrior = False and padj
DESeq2
LogFC
Adjusted pvalue
updated 10.1 years ago by
Michael Love
43k • written 10.1 years ago by
madal
• 0
0
votes
3
replies
4.0k
views
[limma - v. 17 June 2014] Log2 or not to log2 the data? (Agilent single-channel microarray data)
limma
logFC
normalizeBetweenArrays()
10.3 years ago
FAVI
• 0
29 results • Page
1 of 1
Recent ...
Replies
Answer: cameraPR() non directional test
by
Gordon Smyth
52k
Yes, you can still do non-directional tests using cameraPR(), but it's not quite as easy as it was using the original camera() function as …
Answer: WGCNA with paired samples
by
Ivo
• 0
You can use batch correction on the person ID and then continue WGCNA as usual using the corrected matrix. You can use e.g. sva::ComBat or …
Answer: Plot title for PCA in DESeq2
by
ATpoint
★ 4.7k
The function uses ggplot2, so you need `+ ggtitle('title')`. Please take a ggplot2 tutorial for details.
Comment: DESeq2 It is correct to use interaction term for patient variability?
by
Bradley
• 0
I apologize, but I am still perplexed. I need to know the exact type of replication. Do we have many samples taken from the same tumor? You…
Comment: Differential variance analysis - can i use deseq2
by
Michael Love
43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
Awards
• All
Popular Question
to
leakerb
• 0
Popular Question
to
Mark Dunning
★ 1.1k
Popular Question
to
shepherl
4.1k
Popular Question
to
Hugo Varet
▴ 80
Popular Question
to
Fred Hutch (Recruiting)
▴ 40
Locations
• All
Pittsburgh, United States,
12 minutes ago
Seattle, WA, United States,
26 minutes ago
UPF, Barcelona, Spain,
1 hour ago
United States,
1 hour ago
WEHI, Melbourne, Australia,
1 hour ago
Traffic: 430 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