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des
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DESeq2 inconsistent fits depending on model design with interacting factors
des
DESeq2
written 5 months ago by
fedor.bezrukov
▴ 10
0
votes
1
reply
670
views
unreal negative log2fc values
DESeq2
des
updated 18 months ago by
James W. MacDonald
68k • written 18 months ago by
Atul K.
• 0
2
votes
9
replies
1.9k
views
Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
DESeq2
RUVSeq
RUVseq
BatchEffect
DES
updated 20 months ago by
James W. MacDonald
68k • written 20 months ago by
Alexandre
• 0
0
votes
1
reply
652
views
Bioinformatics student
Des
DESeq2
updated 21 months ago by
hemantcnaik
• 0 • written 21 months ago by
Sahar
• 0
2
votes
2
replies
822
views
With DESeq2 "Not full rank" Error with design
DESeq2
DEs
22 months ago
feather-W
• 0
0
votes
1
reply
934
views
Design structure
DESeq2
des
updated 3.1 years ago by
Michael Love
43k • written 3.2 years ago by
Devin
• 0
0
votes
1
reply
1.0k
views
Design Matrix Singularity Error
DES
DESIGN
updated 3.3 years ago by
Michael Love
43k • written 3.3 years ago by
mike
• 0
0
votes
1
reply
1.2k
views
Matrix not full rank (time-series experiment with one group and covariates )
DESeq2
DES
updated 5.1 years ago by
Michael Love
43k • written 5.1 years ago by
heikki.sarin
▴ 10
8 results • Page
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Recent ...
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Comment: Development of MSstat workflow to analyze DIA time series data
by
Gordon Smyth
53k
Are there any other explanatory factors or covariates in your experiment other than time point? Do you have biological replicates at each t…
Answer: Question about the filterByExpr function inputs in edgeR
by
Gordon Smyth
53k
Either of these choices is perfectly acceptable from an edgeR analysis point of view, it is more to do with which is more relevant for your…
Comment: Clarification on counting in Rsubread (featureCounts)
by
Gordon Smyth
53k
Your follow-up question is very much wider than the first, and is essentially a research question rather a software question. As one of the…
Comment: Error in creating BSGenome package
by
Nguyen
• 0
I keep running into this error, please help: ``` Writing all sequences to './BSgenome.Panubis.NCBI.Panubis1.0/inst/extdata/single_sequenc…
Comment: Joining different datasets and analyzing using the group-specific condition effe
by
James W. MacDonald
68k
There is an example of how you can do this in the [DESeq vignette][1]. An alternative would be to fit a linear mixed model using the `vari…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
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