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Showing :
variancePartition
•
reset
1
vote
2
replies
330
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
3 months ago
Le
• 0
1
vote
4
replies
939
views
BiocParallel serialization errors on Windows
variancePartition
BiocParallel
7 months ago
hayleyw
• 0
1
vote
7
replies
1.0k
views
DuplicateCorrelation() block by duplicate sample or by cell line ?
variancePartition
RNASeqData
limma
BulkRNAseq
RNASeq
updated 7 months ago by
Gordon Smyth
51k • written 9 months ago by
Gimena
• 0
0
votes
9
replies
1.0k
views
How long does it usually take to complete dream() from start to finish?
variancePartition
mixedmodel
dream
11 months ago
hayleyw
• 0
1
vote
5
replies
1.7k
views
How many parameters should be included in the model design for deseq2?
DESeq2
variancePartition
16 months ago • updated 15 months ago
Weiqian
▴ 10
1
vote
4
replies
804
views
Repeated Measures-Cross Over Study for RNAseq data using variancePartition::dream
RNAseq
variancePartition
edgeR
dream
16 months ago
DH
• 0
0
votes
5
replies
1.1k
views
Semi-technical replicates and voom sample weights
variancePa
variancePartition
limma-voom
dream
updated 17 months ago by
Gordon Smyth
51k • written 17 months ago by
Le
• 0
0
votes
0
replies
509
views
Argument is of length zero in variancePartition/Dream
expression
variancePartition
edgeR
23 months ago
Jonathan
• 0
1
vote
1
reply
1.3k
views
Repeated measures RNAseq analysis (edgeR or limma-voom)
edgeR
limma
variancePartition
updated 3.0 years ago by
Gordon Smyth
51k • written 3.0 years ago by
jackgisby
• 0
1
vote
3
replies
1.4k
views
limma - contrast matrix hypothesis testing
limma
variancePartition
updated 3.1 years ago by
Gordon Smyth
51k • written 3.1 years ago by
jarod
▴ 30
1
vote
0
replies
890
views
What are cov.coefficients and cov.coefficients.list returned by dream()?
variancePartition
limma
3.2 years ago
Junghoon
▴ 10
0
votes
1
reply
1.2k
views
Error while running variancePartition::dream()
variancePartition
limma
BiocParallel
3.2 years ago
Junghoon
▴ 10
0
votes
1
reply
1.2k
views
Excessive memory requirement of variancePartition::dream()
BiocParallel
limma
variancePartition
3.2 years ago • updated 3.1 years ago
Junghoon
▴ 10
9
votes
11
replies
2.6k
views
dream vignette says limma-voom repeated measures two-group comparison needs two duplicateCorrelation rounds which differs from limma user's guide and…
dream
variancePartition
limma
differential expression
repeated measures
updated 4.8 years ago by
Gordon Smyth
51k • written 4.8 years ago by
hermidalc
▴ 20
3
votes
8
replies
1.7k
views
Results from variancePartition not matching those from lme4
variancepartition
lme4
mixedmodel
updated 4.8 years ago by
gabriel.hoffman
▴ 150 • written 4.9 years ago by
c.taylor
• 0
4
votes
3
replies
1.8k
views
Blocking factor in limma/voom vs. variancePartition/dream analysis.
limma
voom
variancePartition
dream
updated 4.8 years ago by
gabriel.hoffman
▴ 150 • written 5.1 years ago by
Ben
▴ 50
16 results • Page
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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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