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log2fc
•
reset
1
vote
13
replies
1.4k
views
Ranking the GSEA Results
fgsea
log2FC
7 months ago
V_Vibes
• 0
1
vote
1
reply
449
views
DESeq2 - vst() - log2FC - no replicates
DESeq2
log2FC
vst()
updated 7 months ago by
ATpoint
★ 4.6k • written 7 months ago by
lifeonmars
• 0
0
votes
2
replies
899
views
Why my log2fcs are too high?
DESeq2
SingleCell
log2FC
21 months ago
paria.alipour
• 0
1
vote
4
replies
2.1k
views
Inverted Log2FC values after DEseq2 analysis
DESeq2
Log2FC
RNASeqData
2.1 years ago
Iwan
• 0
0
votes
1
reply
959
views
Log2FC in LRT vs Wald in multifactorial design
DESeq2
LRT
multifactorial
up/down-reg
log2FC
updated 2.2 years ago by
James W. MacDonald
68k • written 2.2 years ago by
Laia
▴ 10
0
votes
4
replies
5.9k
views
Understanding the Log2FoldChange calculated with DESeq2 and according to formula log2(treated/control)
DESeq2
log2FC
2.4 years ago
User000
• 0
2
votes
4
replies
1.7k
views
pre-ranked GSEA or not?
log2FC
DESeq2
GSEA
voom
limma
updated 2.6 years ago by
Gordon Smyth
52k • written 2.6 years ago by
Yang Shi
▴ 10
1
vote
5
replies
3.0k
views
log2FC calculation in EdgeR
edger
log2FC
written 5.3 years ago by
matteo.buti
• 0
2
votes
4
replies
1.6k
views
Standard error of log2FC from DESeq in time series experiment
deseq2
log2fc
standard error
timecourse
updated 7.0 years ago by
ellascottgm
• 0 • written 7.0 years ago by
Verena
• 0
0
votes
3
replies
1.6k
views
disagreement between log2FoldChange and lfcMLE in DESeq2
deseq2
log2fc
shrinkage
updated 7.2 years ago by
Michael Love
43k • written 7.2 years ago by
aec
▴ 90
1
vote
3
replies
6.2k
views
log2 fold change calculation for DE gene analysis
deseq2
L2FC
log2fc
updated 7.5 years ago by
Michael Love
43k • written 7.5 years ago by
sup230
▴ 30
0
votes
2
replies
4.2k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2
log2fc
updated 8.3 years ago by
Michael Love
43k • written 8.3 years ago by
David R
▴ 90
2
votes
2
replies
2.3k
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 8.7 years ago by
Michael Love
43k • written 8.7 years ago by
robin.uchiyama
• 0
6
votes
8
replies
6.8k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma
pvalue
log2fc
log2
updated 2.2 years ago by
James W. MacDonald
68k • written 8.9 years ago by
serpalma.v
▴ 60
1
vote
10
replies
6.3k
views
DESEQ2: apparently wrong log2(fold-change) calculation
deseq2
differential gene expression
log2fc
8.9 years ago
Osvaldo
▴ 40
1
vote
3
replies
2.5k
views
Log2 foldchange in DESeq2
deseq2
R
log2fc
updated 9.2 years ago by
Michael Love
43k • written 9.2 years ago by
Sushant Pawar
• 0
1
vote
5
replies
2.1k
views
Log2FC values very small with SCAN
scan
Log2FC
updated 9.6 years ago by
Gordon Smyth
52k • written 9.6 years ago by
Vani
▴ 20
17 results • Page
1 of 1
Recent ...
Replies
Comment: WGCNA coupled with differential expression analysis: question about baseline mod
by
hetaf16210
• 0
@[slope][1] If feasible, consider conducting both analyses. Start with a pooled analysis to identify broad patterns, then conduct separate …
Comment: DESeq2 adujsted p-value cutoff seemingly not working
by
980linnet
• 0
Stuck on DESeq2 with alpha=.05 for padj cutoff. Can't seem to get the differential expression analysis to stick the landing - it's like try…
Comment: internal error in trio library when trying to use lfmm() in LEA package
by
PW
• 0
>ERROR: unable to open file D://anole_geno.snmf/K1/run1/anole_geno_r1.1.Q. Please, check that the name of the file you provided is correct.…
Comment: DESeq2 adujsted p-value cutoff seemingly not working
by
Guilherme
• 0
Thank you for your answer So the proper way to conduct the analysis is to put the filters in the results() function and later filter the da…
Comment: DiffBind - observation that the default union overlap is actually a gap of 1 bp
by
Ian D.
▴ 70
Please can you comment on this @rory.
Votes
A: how to extract Granges not overlapping with other ganges?
DESeq2 1.20.0 lfcshrink function
A: LIMMA on RT-PCR data
Answer: Efficiently working with HDF5-backed SingleCellExperiments
Efficiently working with HDF5-backed SingleCellExperiments
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ramiro.barrantes
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Vincent J. Carey, Jr.
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