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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 2.1 years ago by
ATpoint
★ 4.2k • written 5.9 years ago by
Beginner
▴ 60
1
vote
2
replies
2.2k
views
diffBind report Fold scale
diffBind
Fold Change
updated 3.1 years ago by
Joe Nicholas
• 0 • written 5.4 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 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
ilovesuperheroes1993
• 0
0
votes
0
replies
949
views
PROBLEM WITH MFUZZ
mfuzz
fold change
log2
STANDARDISATION
6.0 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 6.3 years ago by
James W. MacDonald
66k • written 6.3 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 7.8 years ago by
Gordon Smyth
51k • written 7.8 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 7.9 years ago by
Ryan C. Thompson
★ 7.9k • written 7.9 years ago by
Sara
▴ 10
7 results • Page
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Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
adripel
• 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2
by
Michael Love
42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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