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log2fc
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1
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10
replies
5.8k
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DESEQ2: apparently wrong log2(fold-change) calculation
deseq2
differential gene expression
log2fc
8.0 years ago
Osvaldo
▴ 40
6
votes
8
replies
5.6k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma
pvalue
log2fc
log2
updated 16 months ago by
James W. MacDonald
65k • written 8.0 years ago by
serpalma.v
▴ 60
1
vote
3
replies
5.1k
views
log2 fold change calculation for DE gene analysis
deseq2
L2FC
log2fc
updated 6.6 years ago by
Michael Love
41k • written 6.6 years ago by
sup230
▴ 30
0
votes
4
replies
4.0k
views
Understanding the Log2FoldChange calculated with DESeq2 and according to formula log2(treated/control)
DESeq2
log2FC
18 months ago
User000
• 0
0
votes
2
replies
3.7k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2
log2fc
updated 7.4 years ago by
Michael Love
41k • written 7.4 years ago by
David R
▴ 90
1
vote
5
replies
2.3k
views
log2FC calculation in EdgeR
edger
log2FC
written 4.4 years ago by
matteo.buti
• 0
1
vote
3
replies
2.3k
views
Log2 foldchange in DESeq2
deseq2
R
log2fc
updated 8.3 years ago by
Michael Love
41k • written 8.3 years ago by
Sushant Pawar
• 0
2
votes
2
replies
1.9k
views
Can I calculate counts from the base mean and log2fc outputs of DESeq2? Also, can I calculate error for counts values from lfcse output?
deseq2
chipseq
counts
log2fc
error
updated 7.8 years ago by
Michael Love
41k • written 7.8 years ago by
robin.uchiyama
• 0
1
vote
5
replies
1.7k
views
Log2FC values very small with SCAN
scan
Log2FC
updated 8.7 years ago by
Gordon Smyth
50k • written 8.7 years ago by
Vani
▴ 20
0
votes
3
replies
1.3k
views
disagreement between log2FoldChange and lfcMLE in DESeq2
deseq2
log2fc
shrinkage
updated 6.3 years ago by
Michael Love
41k • written 6.3 years ago by
aec
▴ 90
2
votes
4
replies
1.3k
views
pre-ranked GSEA or not?
log2FC
DESeq2
GSEA
voom
limma
updated 20 months ago by
Gordon Smyth
50k • written 20 months ago by
Yang Shi
▴ 10
2
votes
4
replies
1.2k
views
Standard error of log2FC from DESeq in time series experiment
deseq2
log2fc
standard error
timecourse
updated 6.1 years ago by
ellascottgm
• 0 • written 6.1 years ago by
Verena
• 0
1
vote
4
replies
1.2k
views
Inverted Log2FC values after DEseq2 analysis
DESeq2
Log2FC
RNASeqData
14 months ago
Iwan
• 0
0
votes
1
reply
636
views
Log2FC in LRT vs Wald in multifactorial design
DESeq2
LRT
multifactorial
up/down-reg
log2FC
updated 15 months ago by
James W. MacDonald
65k • written 15 months ago by
Laia
▴ 10
0
votes
2
replies
582
views
Why my log2fcs are too high?
DESeq2
SingleCell
log2FC
11 months ago
paria.alipour
• 0
15 results • Page
1 of 1
Recent ...
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
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…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
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
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