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log2fc
•
reset
1
vote
13
replies
658
views
Ranking the GSEA Results
fgsea
log2FC
29 days ago • updated 11 days ago
V_Vibes
• 0
1
vote
1
reply
187
views
DESeq2 - vst() - log2FC - no replicates
DESeq2
log2FC
vst()
updated 5 weeks ago by
ATpoint
★ 4.2k • written 5 weeks ago by
lifeonmars
• 0
0
votes
2
replies
706
views
Why my log2fcs are too high?
DESeq2
SingleCell
log2FC
15 months ago
paria.alipour
• 0
1
vote
4
replies
1.5k
views
Inverted Log2FC values after DEseq2 analysis
DESeq2
Log2FC
RNASeqData
18 months ago
Iwan
• 0
0
votes
1
reply
758
views
Log2FC in LRT vs Wald in multifactorial design
DESeq2
LRT
multifactorial
up/down-reg
log2FC
updated 19 months ago by
James W. MacDonald
66k • written 19 months ago by
Laia
▴ 10
0
votes
4
replies
4.8k
views
Understanding the Log2FoldChange calculated with DESeq2 and according to formula log2(treated/control)
DESeq2
log2FC
22 months ago
User000
• 0
2
votes
4
replies
1.5k
views
pre-ranked GSEA or not?
log2FC
DESeq2
GSEA
voom
limma
updated 2.0 years ago by
Gordon Smyth
51k • written 2.0 years ago by
Yang Shi
▴ 10
1
vote
5
replies
2.5k
views
log2FC calculation in EdgeR
edger
log2FC
written 4.8 years ago by
matteo.buti
• 0
2
votes
4
replies
1.4k
views
Standard error of log2FC from DESeq in time series experiment
deseq2
log2fc
standard error
timecourse
updated 6.5 years ago by
ellascottgm
• 0 • written 6.5 years ago by
Verena
• 0
0
votes
3
replies
1.4k
views
disagreement between log2FoldChange and lfcMLE in DESeq2
deseq2
log2fc
shrinkage
updated 6.6 years ago by
Michael Love
42k • written 6.6 years ago by
aec
▴ 90
1
vote
3
replies
5.4k
views
log2 fold change calculation for DE gene analysis
deseq2
L2FC
log2fc
updated 7.0 years ago by
Michael Love
42k • written 7.0 years ago by
sup230
▴ 30
0
votes
2
replies
4.0k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2
log2fc
updated 7.8 years ago by
Michael Love
42k • written 7.8 years ago by
David R
▴ 90
2
votes
2
replies
2.0k
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 8.1 years ago by
Michael Love
42k • written 8.1 years ago by
robin.uchiyama
• 0
6
votes
8
replies
6.0k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma
pvalue
log2fc
log2
updated 20 months ago by
James W. MacDonald
66k • written 8.3 years ago by
serpalma.v
▴ 60
1
vote
10
replies
6.0k
views
DESEQ2: apparently wrong log2(fold-change) calculation
deseq2
differential gene expression
log2fc
8.3 years ago
Osvaldo
▴ 40
1
vote
3
replies
2.4k
views
Log2 foldchange in DESeq2
deseq2
R
log2fc
updated 8.7 years ago by
Michael Love
42k • written 8.7 years ago by
Sushant Pawar
• 0
1
vote
5
replies
1.9k
views
Log2FC values very small with SCAN
scan
Log2FC
updated 9.0 years ago by
Gordon Smyth
51k • written 9.0 years ago by
Vani
▴ 20
17 results • Page
1 of 1
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Replies
Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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Lluís Revilla Sancho
▴ 730
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to
maltethodberg
▴ 180
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to
Michael Love
42k
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Leonardo Collado Torres
★ 1.1k
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to
Gordon Smyth
51k
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