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Showing :
ExpressionData
•
reset
3
votes
2
replies
892
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools
limma
ExpressionData
RNASeq
edgeR
11 months ago
mohammedtoufiq91
▴ 10
0
votes
1
reply
585
views
Time change in expression vs time change in phenotype
Transcriptomics
ExpressionData
DESeq2
updated 2.0 years ago by
Michael Love
43k • written 2.0 years ago by
Ivan
• 0
0
votes
2
replies
902
views
Doubt about expression data as well as assay
GEOquery
ExpressionData
assay
SummarizedExperiment
ExpressionAtlas
updated 2.1 years ago by
pmadrigal
• 0 • written 2.1 years ago by
Kritikaverma2707
• 0
3
votes
2
replies
819
views
please resolve the issue
gene
ExpressionData
updated 2.1 years ago by
James W. MacDonald
68k • written 2.1 years ago by
sonal
• 0
1
vote
2
replies
4.2k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma
R
ExpressionData
updated 2.2 years ago by
Gordon Smyth
52k • written 2.3 years ago by
Keith
• 0
0
votes
3
replies
1.1k
views
expression data
ExpressionData
ExpressionNormalizationWorkflow
updated 2.6 years ago by
James W. MacDonald
68k • written 2.6 years ago by
Upasana
• 0
0
votes
0
replies
746
views
edgeR testing interactions between two factors while controlling for blocking factor
edgeR
ExpressionData
RNASeqData
3.1 years ago
Mafalda
• 0
0
votes
1
reply
984
views
HSMMSingleCell metadata
ExperimentHubData
ExpressionData
CellDataSet
RNASeqData
3.1 years ago
karl.stamm
▴ 10
2
votes
2
replies
1.1k
views
Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression
DESeq2
ExpressionData
updated 3.1 years ago by
fivescarynightsgames
• 0 • written 3.1 years ago by
reza
▴ 10
0
votes
3
replies
1.2k
views
Error in loading data set
ExpressionData
updated 3.2 years ago by
Basti
▴ 780 • written 3.2 years ago by
Muhammad
• 0
0
votes
0
replies
707
views
Gene expression changes in one condition
RNASeq
Gene
ExpressionData
3.4 years ago
AZ
▴ 30
0
votes
2
replies
2.2k
views
PCA and heatmaps: most variable genes selection
DESeq2
ExpressionData
heatmaps
pca
3.9 years ago
Clara
▴ 10
3
votes
2
replies
1.5k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData
ArrayExpress
updated 4.0 years ago by
Gordon Smyth
52k • written 4.0 years ago by
Gero
• 0
1
vote
3
replies
1.2k
views
DESeq analysis with Biological replicate.
DESeq2
ExpressionData
GeneExpression
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
Javad_Sadeghi
• 0
0
votes
0
replies
1.5k
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network
StatisticalMethod
WGCNA
ExpressionData
4.3 years ago
jol.espinoz
▴ 40
0
votes
1
reply
949
views
Function createExpressionSet: Creating an ExpressionSet - Which package needed?
ExpressionData
updated 4.4 years ago by
Michael Love
43k • written 4.4 years ago by
Bine
▴ 50
0
votes
0
replies
979
views
nested design with random factor and limma???
ExpressionData
limma
ExpressionData
limma
16.8 years ago
Gordon Smyth
52k
1
vote
0
replies
976
views
nested design with random factor and limma???
ExpressionData
limma
ExpressionData
limma
16.8 years ago
Bettina Kulle Andreassen
▴ 20
0
votes
0
replies
1.2k
views
How to display or output expression data with non-unique feature labels?
ExpressionData
ExpressionData
17.8 years ago
Kocherginsky, Masha [BSD] - HSD
▴ 10
0
votes
0
replies
1.4k
views
How to display or output expression data with non-unique feature labels?
Annotation
ExpressionData
Annotation
ExpressionData
17.8 years ago
Martin Morgan
25k
20 results • Page
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Replies
Comment: RNA Seq using Lrt
by
Rob
• 0
So if I have understood what you have said : If i want to see if Day (time) has an effect / is being tested - then the reduced model should…
Comment: How to convert transcript counts to gene counts in R?
by
ben
• 0
Simply summing transcripts by gene is sufficient for use with DESeq2. [sprunki clicker][1] [1]: https://sprunkiclicker.com/
Answer: EuroBioC2024 abstract submission is open!
by
Ali
• 0
[Promo products][1] are a smart way to boost visibility, especially with exciting updates like *News: EuroBioC2024 abstract submission is o…
Answer: ROAST for small sets
by
Gordon Smyth
52k
The p-values from `mroast` will be the same (up to sampling variability associated with random rotations) regardless of whether you test al…
Comment: FlowSOM library requires igraph but igraph does not install
by
Szabolcs
• 0
The R/igraph Installation FAQ covers most issues: https://r.igraph.org/articles/installation-troubleshooting.html
Votes
Answer: ROAST for small sets
Answer: ROAST for small sets
A: conceptual question about FDR, FDR adjusted p-value and q-value
Comment: edgeR::cpm() results in negative values from raw counts of 0
Comment: edgeR::cpm() results in negative values from raw counts of 0
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