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log2fc
•
reset
1
vote
13
replies
1.1k
views
Ranking the GSEA Results
fgsea
log2FC
4 months ago • updated 3 months ago
V_Vibes
• 0
1
vote
1
reply
338
views
DESeq2 - vst() - log2FC - no replicates
DESeq2
log2FC
vst()
updated 4 months ago by
ATpoint
★ 4.5k • written 4 months ago by
lifeonmars
• 0
0
votes
2
replies
817
views
Why my log2fcs are too high?
DESeq2
SingleCell
log2FC
18 months ago
paria.alipour
• 0
1
vote
4
replies
1.8k
views
Inverted Log2FC values after DEseq2 analysis
DESeq2
Log2FC
RNASeqData
22 months ago
Iwan
• 0
0
votes
1
reply
891
views
Log2FC in LRT vs Wald in multifactorial design
DESeq2
LRT
multifactorial
up/down-reg
log2FC
updated 23 months ago by
James W. MacDonald
67k • written 23 months ago by
Laia
▴ 10
0
votes
4
replies
5.3k
views
Understanding the Log2FoldChange calculated with DESeq2 and according to formula log2(treated/control)
DESeq2
log2FC
2.1 years ago
User000
• 0
2
votes
4
replies
1.6k
views
pre-ranked GSEA or not?
log2FC
DESeq2
GSEA
voom
limma
updated 2.3 years ago by
Gordon Smyth
51k • written 2.3 years ago by
Yang Shi
▴ 10
1
vote
5
replies
2.8k
views
log2FC calculation in EdgeR
edger
log2FC
written 5.0 years ago by
matteo.buti
• 0
2
votes
4
replies
1.5k
views
Standard error of log2FC from DESeq in time series experiment
deseq2
log2fc
standard error
timecourse
updated 6.7 years ago by
ellascottgm
• 0 • written 6.7 years ago by
Verena
• 0
0
votes
3
replies
1.5k
views
disagreement between log2FoldChange and lfcMLE in DESeq2
deseq2
log2fc
shrinkage
updated 6.9 years ago by
Michael Love
42k • written 6.9 years ago by
aec
▴ 90
1
vote
3
replies
5.9k
views
log2 fold change calculation for DE gene analysis
deseq2
L2FC
log2fc
updated 7.2 years ago by
Michael Love
42k • written 7.3 years ago by
sup230
▴ 30
0
votes
2
replies
4.1k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2
log2fc
updated 8.0 years ago by
Michael Love
42k • written 8.0 years ago by
David R
▴ 90
2
votes
2
replies
2.2k
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 8.4 years ago by
Michael Love
42k • written 8.4 years ago by
robin.uchiyama
• 0
6
votes
8
replies
6.4k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma
pvalue
log2fc
log2
updated 23 months ago by
James W. MacDonald
67k • written 8.6 years ago by
serpalma.v
▴ 60
1
vote
10
replies
6.2k
views
DESEQ2: apparently wrong log2(fold-change) calculation
deseq2
differential gene expression
log2fc
8.6 years ago
Osvaldo
▴ 40
1
vote
3
replies
2.5k
views
Log2 foldchange in DESeq2
deseq2
R
log2fc
updated 8.9 years ago by
Michael Love
42k • written 8.9 years ago by
Sushant Pawar
• 0
1
vote
5
replies
2.0k
views
Log2FC values very small with SCAN
scan
Log2FC
updated 9.3 years ago by
Gordon Smyth
51k • written 9.3 years ago by
Vani
▴ 20
17 results • Page
1 of 1
Recent ...
Replies
Comment: Differential Expression Analysis with unbalanced batches without replication bet
by
Thili
• 0
Thank you for your reply. I currently have batch-corrected data processed with scvi-tools (specifically, totalvi) and have followed the sam…
Comment: Problem at champ.load
by
andrew.gibbons
• 0
I'd love to know if anyone has a workaround too. I've tried rolling back ChAMP and R to the previous versions that others have said work wi…
Comment: ESTMATE, MCPcounter, EPIC, xCell input
by
Kang
• 0
These are not, as far as I know, bioconductor packages. You should query on the websites for those specific software programs. @[mapquest][…
Comment: Robust way of dealing with low number of samples for Differential Gene Expressio
by
Kang
• 0
I believe that pseudo-bulking is a strong way to approach DE, as long as it is possible to reliably identify the cell type across data and …
Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column
by
GV Yoshikawa
• 0
Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…
Votes
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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