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EdgeR
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4
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2
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627
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Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea
edgeR
16 days ago • updated 12 days ago
gene_bioconductor
▴ 10
4
votes
6
replies
472
views
FilterByExpr low counts with small sample size
edgeR
4 weeks ago • updated 26 days ago
Jonathan
▴ 10
3
votes
3
replies
368
views
permutation test in edgeR
rna-seq
edgeR
updated 28 days ago by
Gordon Smyth
50k • written 5 weeks ago by
Netanel
• 0
5
votes
3
replies
311
views
Log-cpm values from limma
limma
edgeR
RNASeq
updated 9 days ago by
Gordon Smyth
50k • written 4 weeks ago by
Shaimaa Gamal
• 0
1
vote
3
replies
245
views
How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
DifferentialExpression
TimeCourse
timeOmics
edgeR
RNAseq
updated 4 days ago by
Gordon Smyth
50k • written 5 days ago by
Ashley
• 0
1
vote
2
replies
204
views
Citation for edgeR user guide
edgeR
written 25 days ago by
k___
▴ 30
0
votes
1
reply
177
views
NEED FOR NESSASORY HELP
RNASeqData
edgeR
updated 16 days ago by
Gordon Smyth
50k • written 16 days ago by
z_bahari
• 0
2
votes
3
replies
121
views
How to correctly adjust for gender in edgeR
design
glm
edgeR
updated 3 days ago by
Gordon Smyth
50k • written 4 days ago by
Guillermo
• 0
8 results • Page
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Recent ...
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Answer: all variables in design formula must be columns in colData (Deseq2) error
by
ATpoint
★ 4.1k
Your code is poorly readable. Suggest you select and then highlight with markdown using the `10101` button. Generally, colData(dds) must…
Answer: Subsetting RNAseq data | voomaByGroup()
by
Gordon Smyth
50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons
by
Michael Love
42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs
by
Michael Love
42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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