Showing : variancepartition • reset
0
votes
1
reply
273
views
How to model DE for RNA-seq in concordant monozygotic twins?
RNASeq variancePartition RUVSeq limma edgeR
updated 4 months ago by 53k • written 4 months ago by • 0
0
votes
0
replies
430
views
Testing Differential Expression with Interaction Effect Between Categorical and Continuous Variable with Repeated (Paired) Measures using variancePar…
limma variancePartition
13 months ago GJ • 0
0
votes
2
replies
1.0k
views
sva: get a sv for RIN scores
limma sva variancePartition voom RNASeq
updated 14 months ago by 53k • written 14 months ago by ▴ 10
0
votes
9
replies
2.0k
views
Differential Expression Genes as Independent Variables
limma DifferentialExpression variancePartition dream
updated 14 months ago by 68k • written 14 months ago by • 0
1
vote
3
replies
1.0k
views
makeContrastsDream for Interaction
limma DifferentialExpression variancePartition dream
15 months ago • updated 14 months ago abadgerw • 0
0
votes
5
replies
1.3k
views
Merge Replicates vs Mixed Model
limma DifferentialExpression variancePartition dream
15 months ago • updated 14 months ago abadgerw • 0
2
votes
9
replies
1.7k
views
Seeking Advice on Using edgeR and variancePartition for RNA-seq Data from Multiple Tissues and Patients
edgeR variancePartition
updated 17 months ago by 53k • written 17 months ago by • 0
1
vote
2
replies
1.1k
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
22 months ago Le • 0
1
vote
4
replies
2.6k
views
BiocParallel serialization errors on Windows
variancePartition BiocParallel
2.2 years ago hayleyw • 0
1
vote
7
replies
1.9k
views
DuplicateCorrelation() block by duplicate sample or by cell line ?
variancePartition RNASeqData limma BulkRNAseq RNASeq
updated 2.2 years ago by 53k • written 2.3 years ago by • 0
0
votes
9
replies
2.1k
views
How long does it usually take to complete dream() from start to finish?
variancePartition mixedmodel dream
2.5 years ago hayleyw • 0
1
vote
5
replies
3.1k
views
How many parameters should be included in the model design for deseq2?
DESeq2 variancePartition
2.9 years ago • updated 2.8 years ago Weiqian ▴ 10
1
vote
4
replies
1.5k
views
Repeated Measures-Cross Over Study for RNAseq data using variancePartition::dream
RNAseq variancePartition edgeR dream
2.9 years ago DH • 0
0
votes
5
replies
2.0k
views
Semi-technical replicates and voom sample weights
variancePa variancePartition limma-voom dream
updated 2.9 years ago by 53k • written 2.9 years ago by • 0
0
votes
0
replies
955
views
Argument is of length zero in variancePartition/Dream
expression variancePartition edgeR
3.5 years ago Jonathan • 0
1
vote
1
reply
2.0k
views
Repeated measures RNAseq analysis (edgeR or limma-voom)
edgeR limma variancePartition
updated 4.6 years ago by 53k • written 4.6 years ago by • 0
1
vote
3
replies
2.0k
views
limma - contrast matrix hypothesis testing
limma variancePartition
updated 4.6 years ago by 53k • written 4.6 years ago by ▴ 30
1
vote
0
replies
1.3k
views
What are cov.coefficients and cov.coefficients.list returned by dream()?
variancePartition limma
4.8 years ago Junghoon ▴ 10
0
votes
1
reply
1.8k
views
Error while running variancePartition::dream()
variancePartition limma BiocParallel
4.8 years ago Junghoon ▴ 10
0
votes
1
reply
1.7k
views
Excessive memory requirement of variancePartition::dream()
BiocParallel limma variancePartition
4.8 years ago • updated 4.6 years ago Junghoon ▴ 10
10
votes
11
replies
4.0k
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 6.3 years ago by 53k • written 6.3 years ago by ▴ 20
3
votes
8
replies
2.8k
views
Results from variancePartition not matching those from lme4
variancepartition lme4 mixedmodel
updated 6.4 years ago by ▴ 170 • written 6.5 years ago by • 0
4
votes
3
replies
3.4k
views
Blocking factor in limma/voom vs. variancePartition/dream analysis.
limma voom variancePartition dream
updated 6.4 years ago by ▴ 170 • written 6.6 years ago by ▴ 50
23 results • Page 1 of 1
Recent ...
Replies
Comment: GOseq Probability Weight Function bad fit by a2sahaaaq2c • 0
the mobile gaming world offers a different kind of strategic challenge. Many users today are shifting from heavy data processing to lighthe…
Comment: Postdoctoral Fellow (Computational Biology / Bioinformatics) - Neuroepigenetics by mudasarnaeem2020 • 0
Promoting UDISE+ Features on Social Media to Increase Awareness https://udisseplus.com/[enter link description here][1] [1]: https://ud…
Comment: DiffBind plot.profile error by a2sahaaaq2c • 0
To resolve technical errors like installation failures or login issues, first ensure your device allows in the security settings and that…
Comment: soGGi error by shepherl 4.3k
We have tried to contact the soGGi maintainer to have them update the package to the newer version of gglot2 but they have so far been unre…
Comment: using limma trend workflow in CAMERA by Gordon Smyth 53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Votes
Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
Awards • All
Popular Question to Guido Hooiveld ★ 4.1k
Popular Question to shepherl 4.3k
Popular Question to Steve Lianoglou ★ 13k
Teacher to Michael Love 43k
Supporter to fl ▴ 20
Locations • All
The city by the bay, 2 minutes ago
Poland, 57 minutes ago
United States, 1 hour ago
United States, 2 hours ago
United States, 2 hours ago
Traffic: 1062 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6