Showing : edgeR • reset
0
votes
2
replies
627
views
Improving performance of edgeR and limma while adjusting for multiple confounders
edgeR limma
updated 8 days ago by ★ 4.8k • written 8 days ago by • 0
5
votes
3
replies
766
views
Using edgeR::voomLmFit for the analysis of paired clinical RNA-seq samples with multiple cell types
edgeR limma voomLmFit
updated 14 days ago by 52k • written 15 days ago by ▴ 10
2
votes
2
replies
1.1k
views
Limma - Complex 2-way multi-level contrast with paired samples
edgeR contrastmatrix limma
23 days ago • updated 17 days ago Elizabeth • 0
0
votes
2
replies
420
views
Removing UTR from GTF for gene quantification
edgeR DESeq2
updated 17 days ago by 43k • written 25 days ago by ▴ 20
0
votes
1
reply
240
views
Is it possible to model DNA methylation as a dose response in edgeR?
edgeR
updated 29 days ago by 52k • written 29 days ago by • 0
0
votes
4
replies
1.1k
views
DiffBind edgeR normalization --- why are the normalization factors all equal to 1?
edgeR DiffBind
updated 29 days ago by • 0 • written 4 weeks ago by • 0
2
votes
4
replies
586
views
EdgeR Biological CVs
edgeR
written 10 weeks ago by • 0
3
votes
5
replies
1.3k
views
Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
limma edgeR biomaRt
updated 10 weeks ago by 68k • written 11 weeks ago by ▴ 10
0
votes
2
replies
358
views
Mean variance curve troubleshoot filtering
limmavoom filtering edgeR RNASeqData meanvariancetrend
12 weeks ago gingergeiger22 • 0
0
votes
1
reply
422
views
Please, I desperately need help with DESeq2. Three groups of repeated measures with two timepoints... (plus an additional group)
edgeR DESeq2
updated 12 weeks ago by 43k • written 3 months ago by • 0
1
vote
8
replies
1.1k
views
Incorporating Salmon offset matrix into Wilcoxon DEG analysis
edgeR
3 months ago • updated 12 weeks ago Andre • 0
1
vote
9
replies
998
views
Normalizing batch effects using technical replicates for DGE analysis between two conditions from 2 different runs
limma DESeq2 edgeR
written 3 months ago by ▴ 30
6
votes
10
replies
2.8k
views
What type of counts data to import for performing Isoform analysis in edgeR
limma isoform edgeR salmon R
updated 3 months ago by ★ 4.8k • written 4 months ago by ▴ 10
7
votes
6
replies
1.1k
views
ANOVA like approach of edgeR
edgeR
updated 4 months ago by 52k • written 4 months ago by ▴ 10
3
votes
3
replies
656
views
Is it recommended to analyze different tissues together when using edgeR
DifferentialExpression edgeR
updated 4 months ago by 52k • written 4 months ago by • 0
2
votes
4
replies
1.9k
views
Differential Expression Analysis with unbalanced batches without replication between conditions
edgeR BatchEffect
updated 4 months ago by 52k • written 4 months ago by • 0
1
vote
8
replies
1.7k
views
Combining RNAseq and microarray data using edgeR/limma-voom
limma voom RNASeq edgeR Microarray
written 5 months ago by • 0
0
votes
1
reply
624
views
single cell RNA seq pseudobulk batch correction
edgeR
updated 5 months ago by 68k • written 5 months ago by • 0
3
votes
3
replies
1.1k
views
Robust way of dealing with low number of samples for Differential Gene Expression
limma edgeR DESeq2 MAST
written 5 months ago by • 0
0
votes
4
replies
778
views
RNA-seq: samples form different experiments, how to do DGEs?
DGEs edgeR RNASeqData
5 months ago Philippine • 0
4
votes
6
replies
1.4k
views
Zero intra-block correlation in RRBS analysis using voomLmFit with block
limma duplicateCorrelation edgeR modelMatrixMeth voomLmFit
5 months ago altintas.ali • 0
1
vote
2
replies
439
views
edgeR 4.2.2 not compiled for Windows
edger edgeR
5 months ago Hongjian • 0
3
votes
3
replies
446
views
How to subset voomLmFit (MArrayLM) object?
limma edgeR
5 months ago Guido Hooiveld ★ 4.1k
4
votes
1
reply
463
views
edgeR 4.2.1 compression bug: a minimally reproducible snippet
edger edgeR
updated 5 months ago by 52k • written 5 months ago by • 0
1
vote
1
reply
364
views
Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 6 months ago by ★ 4.8k • written 6 months ago by • 0
1
vote
2
replies
617
views
Poor dispersion fit in DESeq2
limma DESeq2 RNASeq edgeR
updated 6 months ago by 43k • written 6 months ago by ▴ 10
0
votes
2
replies
523
views
EdgeR - Apparent Wrong Direction of logFC with Low Count Data
limma edgeR
updated 6 months ago by 52k • written 6 months ago by • 0
1
vote
2
replies
469
views
Inconsistent result in edgeR
edgeR
6 months ago hiroko.ohmiya • 0
1
vote
1
reply
590
views
Help with design matrix for RNA-seq data using edgeR
edgeR RNASeqData
updated 6 months ago by 52k • written 7 months ago by • 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 7 months ago by 52k • written 7 months ago by • 0
0
votes
3
replies
716
views
comparing common differentially expressed genes from two Rna-Seq Dataset.
DESeq2 edgeR DifferentialExpression
written 7 months ago by • 0
1
vote
1
reply
1.3k
views
Expected memory usage for analyzing large single-cell seq datasets (> 450,000 cells)?
BigData Clustering memory SingleCellExperiment edgeR
updated 7 months ago by ★ 28k • written 7 months ago by • 0
0
votes
1
reply
493
views
edgeR - design a complex matrix
design model.matrix edgeR complexdesign
updated 7 months ago by 52k • written 7 months ago by • 0
3
votes
3
replies
724
views
Optimizing CPM Calculation for Varied RNA-seq Data
edgeR
updated 7 months ago by 68k • written 7 months ago by ▴ 60
0
votes
4
replies
757
views
DE analysis in EdgeR /Can any one please help me.
RNASeqData DEGraph RNASeq edgeR DegNorm
written 8 months ago by • 0
1
vote
8
replies
1.3k
views
Advice on appropriateness of an offset in glmGamPoi/edgeR
DESeq2 glmGamPoi offset edgeR scRNAseq
updated 8 months ago by 52k • written 9 months ago by • 0
3
votes
5
replies
2.5k
views
Right way to pseudobulk donors across replicates in edgeR
pseudobulk edgeR DifferentialExpression
updated 9 months ago by • 0 • written 13 months ago by ▴ 60
0
votes
4
replies
783
views
Single Cell Experiment : Differential Expression "List of length 0" - Help!
DifferentialExpression scran scater SingleCellExperiment edgeR
9 months ago vohara4 • 0
3
votes
6
replies
1.0k
views
Comapre two groups in edgeR- Coefficient and logFC explanation
edgeR
10 months ago JG13 • 0
3
votes
2
replies
853
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools limma ExpressionData RNASeq edgeR
10 months ago mohammedtoufiq91 ▴ 10
3
votes
3
replies
897
views
How to correctly adjust for gender in edgeR
design glm edgeR
updated 10 months ago by 52k • written 10 months ago by • 0
1
vote
3
replies
802
views
How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
DifferentialExpression TimeCourse timeOmics edgeR RNAseq
updated 10 months ago by 52k • written 10 months ago by • 0
0
votes
1
reply
472
views
NEED FOR NESSASORY HELP
RNASeqData edgeR
updated 11 months ago by 52k • written 11 months ago by • 0
4
votes
2
replies
1.4k
views
Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea edgeR
11 months ago gene_bioconductor ▴ 10
1
vote
2
replies
1.1k
views
Citation for edgeR user guide
edgeR
written 11 months ago by ▴ 30
4
votes
6
replies
1.3k
views
FilterByExpr low counts with small sample size
edgeR
11 months ago Jonathan ▴ 10
0
votes
2
replies
478
views
How to make DGEList and design matrix by edgeR package
DGEList edgeR
11 months ago prity6459 • 0
0
votes
3
replies
731
views
Finding DEGs by using edgeR
subsettingdata edgeR designmatrix
updated 11 months ago by 52k • written 11 months ago by • 0
5
votes
3
replies
1.2k
views
Log-cpm values from limma
limma edgeR RNASeq
updated 10 months ago by 52k • written 11 months ago by • 0
3
votes
3
replies
1.3k
views
permutation test in edgeR
rna-seq edgeR
updated 11 months ago by 52k • written 12 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: Question on displaying color photo as Greyscale in EBImage by Albert • 0
great and very nice
Comment: European Bioconductor Conference 2023 planning by Pandora • 0
The [Tag Game][1] is not just a simple chase; it involves strategy and tactics as players must think quickly to avoid being tagged. Various…
Comment: Generalized edgeR functions by bukarimanches • 0
I have estimated the new parameter set, it doesn't seem as useful as I thought [geometry dash lite][1] [1]: https://geometry-lite.com/
Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G by Morse • 0
[Geometry Dash Lite][1] is the free version of the famous Geometry Dash series. It was made by RobTop Games and lets players enjoy the thri…
Comment: How to do simple Fisher' exact test for overlapped genomic interval in R? by bukarimanches • 0
I was unable to find the overlapping genome because it is too old to use [ragdoll archers][1] [1]: https://ragdollarchers.com/
Votes
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
what the test method for enrichGO in clusterProfiler?
Awards • All
Scholar to Michael Love 43k
Popular Question to Rob • 0
Popular Question to shepherl 4.1k
Popular Question to Gordon Smyth 52k
Popular Question to Le • 0
Locations • All
United States, 15 minutes ago
Pittsburgh, United States, 23 minutes ago
Germany, 25 minutes ago
United States, 26 minutes ago
United States, 27 minutes ago
Traffic: 705 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