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variancepartition
•
reset
1
vote
5
replies
418
views
How many parameters should be included in the model design for deseq2?
DESeq2
variancePartition
10 weeks ago • updated 6 weeks ago
Weiqian
▴ 10
1
vote
4
replies
264
views
Repeated Measures-Cross Over Study for RNAseq data using variancePartition::dream
RNAseq
variancePartition
edgeR
dream
12 weeks ago
DH
• 0
0
votes
5
replies
329
views
Semi-technical replicates and voom sample weights
variancePa
variancePartition
limma-voom
dream
updated 3 months ago by
Gordon Smyth
47k • written 3 months ago by
Le
• 0
0
votes
0
replies
205
views
Argument is of length zero in variancePartition/Dream
expression
variancePartition
edgeR
9 months ago
Jonathan
• 0
1
vote
1
reply
748
views
Repeated measures RNAseq analysis (edgeR or limma-voom)
edgeR
limma
variancePartition
updated 22 months ago by
Gordon Smyth
47k • written 22 months ago by
jackgisby
• 0
1
vote
3
replies
842
views
limma - contrast matrix hypothesis testing
limma
variancePartition
updated 23 months ago by
Gordon Smyth
47k • written 23 months ago by
jarod
▴ 20
1
vote
0
replies
492
views
What are cov.coefficients and cov.coefficients.list returned by dream()?
variancePartition
limma
2.1 years ago
Junghoon
▴ 10
0
votes
1
reply
778
views
Error while running variancePartition::dream()
variancePartition
limma
BiocParallel
2.1 years ago
Junghoon
▴ 10
0
votes
1
reply
709
views
Excessive memory requirement of variancePartition::dream()
BiocParallel
limma
variancePartition
2.1 years ago • updated 23 months ago
Junghoon
▴ 10
7
votes
11
replies
1.5k
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 3.7 years ago by
Gordon Smyth
47k • written 3.7 years ago by
hermidalc
▴ 20
3
votes
8
replies
963
views
Results from variancePartition not matching those from lme4
variancepartition
lme4
mixedmodel
updated 3.7 years ago by
gabriel.hoffman
▴ 90 • written 3.8 years ago by
c.taylor
• 0
4
votes
3
replies
1.2k
views
Blocking factor in limma/voom vs. variancePartition/dream analysis.
limma
voom
variancePartition
dream
updated 3.7 years ago by
gabriel.hoffman
▴ 90 • written 3.9 years ago by
Ben
▴ 50
12 results • Page
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Comment: Genelist input for ClusterProfiler
by
Sofia
• 0
Hi Kevin, the input of gseKEGG is the same input of gseGO? I appreciate any help
Answer: error in ChAMP loading file
by
francis10bacon
• 0
Confirm that the IDAT files are in the correct directory and follow the required naming convention. Make sure the IDAT files are compatible…
Comment: Interpret plot from DiffBind
by
Chris
• 0
I sorted Fold decreasing. When I filter out genes with fold > 2.5 and filter out genes with fold < -2.5 and got 1287 genes appear in both s…
Comment: Interpret plot from DiffBind
by
Chris
• 0
Thank you so much. I think the function is `dba.report()`. more_open_in_disease: 79113 more_closed_in_disease: 36828 So there are 79113 pea…
Comment: Interpret plot from DiffBind
by
Chris
• 0
Hi Rory, when I run your code, I got this error: Error: unexpected ')' in: " matrices_color=list(c("white", "ma…
Votes
A: Renaming the seqlevels in a transcript database from GenomicFeatures
A: ggbio error: Objects of type OrganismDb not supported by autoplot
Answer: DeSEQ 2 Error: some values in assay are negative
DESeq2 Error from Installing a Package
Answer: Using PEER to identify hidden confounders in RNA-seq data (not working)
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