Showing : variancepartition • reset
0
votes
0
replies
182
views
Testing Differential Expression with Interaction Effect Between Categorical and Continuous Variable with Repeated (Paired) Measures using variancePar…
limma variancePartition
10 weeks ago GJ • 0
0
votes
2
replies
576
views
sva: get a sv for RIN scores
limma sva variancePartition voom RNASeq
updated 3 months ago by 52k • written 3 months ago by ▴ 10
0
votes
9
replies
1.1k
views
Differential Expression Genes as Independent Variables
limma DifferentialExpression variancePartition dream
updated 3 months ago by 68k • written 3 months ago by • 0
1
vote
3
replies
557
views
makeContrastsDream for Interaction
limma DifferentialExpression variancePartition dream
4 months ago • updated 3 months ago abadgerw • 0
0
votes
5
replies
816
views
Merge Replicates vs Mixed Model
limma DifferentialExpression variancePartition dream
4 months ago • updated 3 months ago abadgerw • 0
2
votes
9
replies
1.0k
views
Seeking Advice on Using edgeR and variancePartition for RNA-seq Data from Multiple Tissues and Patients
edgeR variancePartition
updated 6 months ago by 52k • written 7 months ago by • 0
1
vote
2
replies
680
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
11 months ago Le • 0
1
vote
4
replies
1.8k
views
BiocParallel serialization errors on Windows
variancePartition BiocParallel
15 months ago hayleyw • 0
1
vote
7
replies
1.4k
views
DuplicateCorrelation() block by duplicate sample or by cell line ?
variancePartition RNASeqData limma BulkRNAseq RNASeq
updated 15 months ago by 52k • written 17 months ago by • 0
0
votes
9
replies
1.5k
views
How long does it usually take to complete dream() from start to finish?
variancePartition mixedmodel dream
19 months ago hayleyw • 0
1
vote
5
replies
2.5k
views
How many parameters should be included in the model design for deseq2?
DESeq2 variancePartition
24 months ago • updated 23 months ago Weiqian ▴ 10
1
vote
4
replies
1.1k
views
Repeated Measures-Cross Over Study for RNAseq data using variancePartition::dream
RNAseq variancePartition edgeR dream
2.0 years ago DH • 0
0
votes
5
replies
1.5k
views
Semi-technical replicates and voom sample weights
variancePa variancePartition limma-voom dream
updated 2.1 years ago by 52k • written 2.1 years ago by • 0
0
votes
0
replies
669
views
Argument is of length zero in variancePartition/Dream
expression variancePartition edgeR
2.6 years ago Jonathan • 0
1
vote
1
reply
1.7k
views
Repeated measures RNAseq analysis (edgeR or limma-voom)
edgeR limma variancePartition
updated 3.7 years ago by 52k • written 3.7 years ago by • 0
1
vote
3
replies
1.6k
views
limma - contrast matrix hypothesis testing
limma variancePartition
updated 3.7 years ago by 52k • written 3.8 years ago by ▴ 30
1
vote
0
replies
1.1k
views
What are cov.coefficients and cov.coefficients.list returned by dream()?
variancePartition limma
3.9 years ago Junghoon ▴ 10
0
votes
1
reply
1.4k
views
Error while running variancePartition::dream()
variancePartition limma BiocParallel
3.9 years ago Junghoon ▴ 10
0
votes
1
reply
1.4k
views
Excessive memory requirement of variancePartition::dream()
BiocParallel limma variancePartition
3.9 years ago • updated 3.8 years ago Junghoon ▴ 10
9
votes
11
replies
3.2k
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 5.5 years ago by 52k • written 5.5 years ago by ▴ 20
3
votes
8
replies
2.2k
views
Results from variancePartition not matching those from lme4
variancepartition lme4 mixedmodel
updated 5.5 years ago by ▴ 170 • written 5.6 years ago by • 0
4
votes
3
replies
2.5k
views
Blocking factor in limma/voom vs. variancePartition/dream analysis.
limma voom variancePartition dream
updated 5.5 years ago by ▴ 170 • written 5.7 years ago by ▴ 50
22 results • Page 1 of 1
Recent ...
Replies
Comment: Annotation package for Manduca sexta by GA ▴ 10
Thank you!
Comment: Improving performance of edgeR and limma while adjusting for multiple confounder by ATpoint ★ 4.8k
If 2 minutes is inacceptable to you then you can still fall back to limma-trend which should give a dramatic speedup and finish in seconds.…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k
Great, thanks for the update from Ensembl. So the most relevant part of 'Location: Scaffold HG1277_PATCH: 137,021-141,806 forward strand' …
Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k
We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…
Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k
It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…
Votes
Looking for equivalent EPIC chip v1 vs. v2 annotation variables
Properly constructing a hypergeometric test
A: Is logFC a log2 fold change or some other base in scran::findMarkers
Comment: Error in retrieving clinical data
What is the cheapest day to fly on American Airlines? {Ask_Expert}
Awards • All
Popular Question to Gordon Smyth 52k
Popular Question to mdeea123 ▴ 10
Popular Question to GA ▴ 10
Popular Question to Elizabeth • 0
Popular Question to Kent • 0
Locations • All
United States, 7 minutes ago
Germany, 39 minutes ago
UPF, Barcelona, Spain, 1 hour ago
United Kingdom, 1 hour ago
United Kingdom, 2 hours ago
Traffic: 897 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