Showing : edgeR • reset
0
votes
1
reply
146
views
NEED FOR NESSASORY HELP
RNASeqData edgeR
updated 9 days ago by 50k • written 9 days ago by • 0
4
votes
2
replies
585
views
Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea edgeR
9 days ago • updated 5 days ago gene_bioconductor ▴ 10
1
vote
1
reply
184
views
Citation for edgeR user guide
edgeR
updated 18 days ago by 50k • written 18 days ago by ▴ 30
4
votes
6
replies
449
views
FilterByExpr low counts with small sample size
edgeR
24 days ago • updated 19 days ago Jonathan ▴ 10
0
votes
2
replies
142
views
How to make DGEList and design matrix by edgeR package
DGEList edgeR
22 days ago prity6459 • 0
0
votes
3
replies
196
views
Finding DEGs by using edgeR
subsettingdata edgeR designmatrix
updated 22 days ago by 50k • written 23 days ago by • 0
5
votes
3
replies
274
views
Log-cpm values from limma
limma edgeR RNASeq
updated 1 day ago by 50k • written 23 days ago by • 0
3
votes
3
replies
356
views
permutation test in edgeR
rna-seq edgeR
updated 20 days ago by 50k • written 4 weeks ago by • 0
1
vote
3
replies
356
views
Why is my gene not significantly differentially expressed?
limmaGUI edgeR limma
updated 26 days ago by 50k • written 4 weeks ago by • 0
5
votes
6
replies
445
views
Not fully paired differential gene expression analysis
edgeR DifferentialExpression
updated 28 days ago by ★ 4.1k • written 4 weeks ago by ▴ 30
1
vote
3
replies
269
views
Lib sizes in the DGE object are different from original lib sizes
edgeR DifferentialExpression
updated 5 weeks ago by 65k • written 5 weeks ago by • 0
0
votes
2
replies
184
views
edgeR analysis: glm functions and offset matrix
tximport edgeR Normalization
5 weeks ago Marianna ▴ 20
0
votes
4
replies
441
views
Adjust RNA-seq counts (more than one batch variable) for plotting differentially expressed genes
ComBat sva edgeR
5 weeks ago Lucy ▴ 60
3
votes
5
replies
398
views
Differing results from plotMDS and PCAtools
edgeR PCAtools
updated 6 weeks ago by 50k • written 6 weeks ago by • 0
0
votes
6
replies
366
views
Doing comparison of RNA-seq data using EdgeR
metaMSdata edgeR
updated 6 weeks ago by 50k • written 6 weeks ago by • 0
0
votes
1
reply
243
views
Using splicing junction counts with edgeR/limma-voom
splicing limma edgeR
updated 7 weeks ago by 50k • written 7 weeks ago by • 0
5
votes
3
replies
727
views
What benchmark should I use for setting the EdgeR filterByExpr min.count parameter?
edgeR DifferentialExpression
updated 6 weeks ago by 50k • written 7 weeks ago by ▴ 50
2
votes
3
replies
301
views
edgeR, 3 x 2 design with a batch effect and contrasts
design edgeR contrasts
updated 7 weeks ago by 50k • written 7 weeks ago by • 0
0
votes
2
replies
294
views
RNAseq analysis
rnaseqGene edgeR DEGraph DifferentialExpression
updated 8 weeks ago by 50k • written 8 weeks ago by • 0
2
votes
2
replies
264
views
between lane normalization upper quantile
EDASeq edgeR
8 weeks ago • updated 7 weeks ago elesofi • 0
2
votes
2
replies
273
views
Question about extracting co-efficients for pairwise comparisons in edgeR
limma fit design RNASeq edgeR
8 weeks ago Sabiha ▴ 20
1
vote
3
replies
427
views
Cross-species analysis - how to compute the mid parent value?
DESeq2 limma edgeR DifferentialExpression
written 3 months ago by • 0
3
votes
4
replies
458
views
Right way to pseudobulk donors across replicates in edgeR
pseudobulk edgeR DifferentialExpression
updated 9 weeks ago by 50k • written 9 weeks ago by ▴ 50
0
votes
1
reply
227
views
Different results from DGE using different subgroups in model.matrix
edgeR
updated 9 weeks ago by 50k • written 9 weeks ago by • 0
0
votes
11
replies
759
views
Strange logFC values in differential methylation site anslysis
edgeR MethylationArray
updated 9 weeks ago by 50k • written 10 weeks ago by • 0
0
votes
1
reply
269
views
ExactTest vs QLFTest
edgeR
updated 10 weeks ago by 50k • written 10 weeks ago by • 0
1
vote
6
replies
513
views
Library size normalization in methylation count analysis
edgeR MethylationArray
10 weeks ago mico • 0
2
votes
6
replies
424
views
edgeR: DEGs in a CRD factorial (2x2x2)
edgeR
12 weeks ago • updated 11 weeks ago tsl0026 • 0
5
votes
4
replies
409
views
Confusion about LFC using contrasts weights in EdgeR
edgeR
12 weeks ago • updated 11 weeks ago pl23 • 0
0
votes
8
replies
656
views
Divergent results using exact, glmLRT, and glmQLF tests in edgeR
edgeR
12 weeks ago • updated 11 weeks ago Marianna ▴ 20
3
votes
2
replies
469
views
How does one test for interactions in EdgeR?
edgeR
3 months ago • updated 12 weeks ago pl23 • 0
0
votes
4
replies
357
views
Nested paired design
edgeR
3 months ago manduchi ▴ 10
1
vote
2
replies
334
views
How to get normalized values for methylation counts in edgeR
edgeR MethylationArray
3 months ago mico • 0
2
votes
3
replies
378
views
TMM normalization after RUVg correction
RUVSeq limma DifferentialExpression edgeR Normalization
updated 3 months ago by 65k • written 3 months ago by • 0
4
votes
4
replies
443
views
edgeR - Design matrix for comparisons of all and subsets of samples
edgeR
updated 3 months ago by 65k • written 4 months ago by • 0
6
votes
7
replies
585
views
readDGE in edgeR giving me path names as sample names
edgeR
updated 3 months ago by 50k • written 3 months ago by • 0
1
vote
8
replies
556
views
edgeR error "Design matrix not of full rank"
edgeR methylation
updated 3 months ago by 50k • written 3 months ago by • 0
0
votes
0
replies
256
views
Which normalization should I do use for ATAC Seq using DiffBind
DiffBind edgeR ATACSeq DESeq2
3 months ago Jawahar • 0
2
votes
4
replies
612
views
Does EdgeR trimmed mean of M values (TMM) account for gene length?
Normalization edgeR RNASeq
3 months ago Sabiha ▴ 20
0
votes
3
replies
353
views
EdgeR for methylation analysis when there is no replicates
RRBSdata edgeR
updated 3 months ago by 50k • written 3 months ago by • 0
3
votes
3
replies
692
views
EdgeR: Should I include all samples/conditions in my dispersion estimation while only testing for certain contrasts
edgeR
updated 3 months ago by 50k • written 3 months ago by • 0
4
votes
9
replies
1.1k
views
RNAseq paired-sample differantial expression analysis with many samples
DESeq2 edgeR
4 months ago • updated 3 months ago Luca • 0
0
votes
1
reply
315
views
download problem
edgeR
updated 4 months ago by 50k • written 4 months ago by • 0
0
votes
5
replies
631
views
Help with model for differential expression analysis
DifferentialExpression edgeR
4 months ago • updated 3 months ago Lucy ▴ 60
1
vote
2
replies
481
views
How to perform longitudinal analysis using EdgeR
StatisticalMethod FoldChange edgeR RNASeq
4 months ago Sabiha ▴ 20
5
votes
2
replies
585
views
Filter genes by expression for voomLmFit
DEG edgeR limma voom filterByExpr
updated 5 months ago by 50k • written 5 months ago by • 0
1
vote
2
replies
442
views
EdgeR: Exact test and glmQLFTest produce very different results
DifferentialExpression edgeR
updated 5 months ago by 50k • written 5 months ago by • 0
7
votes
2
replies
829
views
limma::voom vs edgeR::voomLmFit - when to use?
edgeR limma voom RNASeq muscat
updated 5 months ago by 50k • written 5 months ago by • 0
0
votes
3
replies
468
views
'Subtracting' counts on basis of Negative control media and water samples
limma edgeR RNASeq DESeq2
5 months ago Karthik • 0
4
votes
2
replies
652
views
DecideTest vs topTAGs in edgeR
RNAseq StatisticalMethod edgeR
updated 6 months ago by 50k • written 6 months ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ziliang • 0
I am so confused and frustrated learning to use this software. Isn't how you merge the peaksets one of the most important steps for the com…
Answer: SingleR Label.Ont by Denis • 0
[Jackpot City Casino][1] is the perfect option when looking for an online casino in Canada for an exciting vacation and huge winnings that …
Comment: deseq2 results by sajadahmad41454 • 0
thank you so much and sorry for bothering you again and again, it is urgent because it is my project deadline. i have removed that sample a…
Comment: deseq2 results by swbarnes2 ★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code? by NATASHA • 0
did you find a solution? I´m having the same problem
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
Awards • All
Popular Question to maria.soler • 0
Popular Question to Pietro ▴ 40
Popular Question to neilzhao ▴ 30
Popular Question to ATpoint ★ 4.1k
Teacher to Michael Love 42k
Locations • All
France, 9 minutes ago
WEHI, Melbourne, Australia, 16 minutes ago
Pakistan, 17 minutes ago
The city by the bay, 47 minutes ago
United States, 1 hour ago
Traffic: 290 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