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log2fc
•
reset
1
vote
5
replies
1.1k
views
log2FC calculation in EdgeR
edger
log2FC
written 2.6 years ago by
matteo.buti
• 0
2
votes
4
replies
664
views
Standard error of log2FC from DESeq in time series experiment
deseq2
log2fc
standard error
timecourse
updated 4.3 years ago by
ellascottgm
• 0 • written 4.3 years ago by
Verena
• 0
0
votes
3
replies
780
views
disagreement between log2FoldChange and lfcMLE in DESeq2
deseq2
log2fc
shrinkage
updated 4.4 years ago by
Michael Love
36k • written 4.4 years ago by
aec
▴ 90
1
vote
3
replies
3.7k
views
log2 fold change calculation for DE gene analysis
deseq2
L2FC
log2fc
updated 4.8 years ago by
Michael Love
36k • written 4.8 years ago by
sup230
▴ 30
0
votes
2
replies
2.5k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2
log2fc
updated 5.6 years ago by
Michael Love
36k • written 5.6 years ago by
David Rengel
▴ 70
2
votes
2
replies
1.2k
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 5.9 years ago by
Michael Love
36k • written 5.9 years ago by
robin.uchiyama
• 0
6
votes
6
replies
3.9k
views
Does limma calculate pvalues using log2 fold changes or with linear values?
limma
pvalue
log2fc
log2
updated 6.1 years ago by
Aaron Lun
★ 27k • written 6.1 years ago by
serpalma.v
▴ 60
1
vote
10
replies
4.7k
views
DESEQ2: apparently wrong log2(fold-change) calculation
deseq2
differential gene expression
log2fc
6.2 years ago
Osvaldo
▴ 40
1
vote
3
replies
1.8k
views
Log2 foldchange in DESeq2
deseq2
R
log2fc
updated 6.5 years ago by
Michael Love
36k • written 6.5 years ago by
Sushant Pawar
• 0
1
vote
5
replies
1.1k
views
Log2FC values very small with SCAN
scan
Log2FC
updated 6.8 years ago by
Gordon Smyth
45k • written 6.8 years ago by
Vani
▴ 20
10 results • Page
1 of 1
Recent ...
Replies
Answer: DiffBind: 0 consensus peaks for dba.peakset: New bug / undocumented change intro
by
chrarnold
• 0
Thanks a lot for your quick reply, it is very appreciated! Indeed, with your 2 suggested modifications, I can again reproduce the results f…
Answer: DiffBind: 0 consensus peaks for dba.peakset: New bug / undocumented change intro
by
Rory Stark
★ 4.4k
The object in the `.rds` file, `sampleMetaData.df`, is already a `DBA` object, with eight samples: > sampleMetaData.df <- readRDS("~/D…
Comment: Variance explained (coefficient of determination) in edgeR
by
Gemma
• 0
Both strategies actually lead to the same results. Resolved, thanks!
Comment: MSnbase package, Error in downloading data file "PXD000001" from PRIDE Repositor
by
Laurent Gatto
1.5k
Yes, indeed, if you have local files, you can provide their full path as input to the `openMSfile()` function. This is also what happens in…
Comment: MSnbase package, Error in downloading data file "PXD000001" from PRIDE Repositor
by
gianluigi.caltabiano
• 0
Hello, I have the same exact problem. I am doing a tutorial about Quantitative Proteomics using rpx to import data an PXDataset keep givin…
Votes
Answer: DESeq2: Extracting Averaged Counts Information from dds and rld
Answer: DESeq2: Extracting Averaged Counts Information from dds and rld
Answer: DESeq2: Extracting Averaged Counts Information from dds and rld
Answer: Variance explained (coefficient of determination) in edgeR
Comment: cellCounts() function floating point error
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★ 1.9k
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