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fold change
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Possible ways to select differential expressed genes using DeSeq2 or edgeR
R
deseq2
edger
differential gene expression
fold change
updated 2.0 years ago by
ATpoint
★ 4.1k • written 5.9 years ago by
Beginner
▴ 60
1
vote
2
replies
2.2k
views
diffBind report Fold scale
diffBind
Fold Change
updated 3.0 years ago by
Joe Nicholas
• 0 • written 5.3 years ago by
joseluis.ruiz
• 0
2
votes
4
replies
1.3k
views
Majority upregulated genes in edgeR
edger
differential expression
genes
fold change
updated 4.9 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
ilovesuperheroes1993
• 0
0
votes
0
replies
936
views
PROBLEM WITH MFUZZ
mfuzz
fold change
log2
STANDARDISATION
5.9 years ago
prakashpandey1111
• 0
1
vote
1
reply
1.4k
views
What is the exact formula for the calculation of Fold Change (FC), p-val and q-val in Ballgown stattest?
ballgown
stattest
fold change
updated 6.2 years ago by
James W. MacDonald
65k • written 6.2 years ago by
ag1805x
▴ 80
0
votes
1
reply
1.5k
views
Question on fold change calculation for microarray data
logfc
limma
fold change
updated 7.7 years ago by
Gordon Smyth
50k • written 7.7 years ago by
Claudia
▴ 10
2
votes
7
replies
2.4k
views
About differentially expressed genes that found by edgeR
edgeR
DE analysis
fold change
cpm
updated 7.8 years ago by
Ryan C. Thompson
★ 7.9k • written 7.8 years ago by
Sara
▴ 10
7 results • Page
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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 oneā¦
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
JKim
• 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
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!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
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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