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Showing :
ExpressionData
•
reset
2
votes
2
replies
289
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools
limma
ExpressionData
RNASeq
edgeR
9 weeks ago
mohammedtoufiq91
▴ 10
0
votes
1
reply
406
views
Time change in expression vs time change in phenotype
Transcriptomics
ExpressionData
DESeq2
updated 15 months ago by
Michael Love
42k • written 15 months ago by
Ivan
• 0
0
votes
2
replies
670
views
Doubt about expression data as well as assay
GEOquery
ExpressionData
assay
SummarizedExperiment
ExpressionAtlas
updated 16 months ago by
pmadrigal
• 0 • written 16 months ago by
Kritikaverma2707
• 0
3
votes
2
replies
606
views
please resolve the issue
gene
ExpressionData
updated 16 months ago by
James W. MacDonald
66k • written 16 months ago by
sonal
• 0
1
vote
2
replies
2.4k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma
R
ExpressionData
updated 17 months ago by
Gordon Smyth
51k • written 18 months ago by
Keith
• 0
0
votes
3
replies
858
views
expression data
ExpressionData
ExpressionNormalizationWorkflow
updated 22 months ago by
James W. MacDonald
66k • written 22 months ago by
Upasana
• 0
0
votes
0
replies
613
views
edgeR testing interactions between two factors while controlling for blocking factor
edgeR
ExpressionData
RNASeqData
2.3 years ago
Mafalda
• 0
0
votes
1
reply
719
views
HSMMSingleCell metadata
ExperimentHubData
ExpressionData
CellDataSet
RNASeqData
2.3 years ago
karl.stamm
▴ 10
2
votes
2
replies
895
views
Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression
DESeq2
ExpressionData
updated 2.3 years ago by
fivescarynightsgames
• 0 • written 2.4 years ago by
reza
▴ 10
0
votes
3
replies
954
views
Error in loading data set
ExpressionData
updated 2.5 years ago by
Basti
▴ 780 • written 2.5 years ago by
Muhammad
• 0
0
votes
0
replies
572
views
Gene expression changes in one condition
RNASeq
Gene
ExpressionData
2.7 years ago
AZ
▴ 30
0
votes
2
replies
1.8k
views
PCA and heatmaps: most variable genes selection
DESeq2
ExpressionData
heatmaps
pca
3.1 years ago
Clara
▴ 10
3
votes
2
replies
1.3k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData
ArrayExpress
updated 3.3 years ago by
Gordon Smyth
51k • written 3.3 years ago by
Gero
• 0
1
vote
3
replies
1.1k
views
DESeq analysis with Biological replicate.
DESeq2
ExpressionData
GeneExpression
updated 3.5 years ago by
Michael Love
42k • written 3.5 years ago by
Javad_Sadeghi
• 0
0
votes
0
replies
1.3k
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network
StatisticalMethod
WGCNA
ExpressionData
3.5 years ago
jol.espinoz
▴ 40
0
votes
1
reply
767
views
Function createExpressionSet: Creating an ExpressionSet - Which package needed?
ExpressionData
updated 3.6 years ago by
Michael Love
42k • written 3.6 years ago by
Bine
▴ 50
0
votes
0
replies
852
views
nested design with random factor and limma???
ExpressionData
limma
ExpressionData
limma
16.0 years ago
Gordon Smyth
51k
1
vote
0
replies
859
views
nested design with random factor and limma???
ExpressionData
limma
ExpressionData
limma
16.0 years ago
Bettina Kulle Andreassen
▴ 20
0
votes
0
replies
1.1k
views
How to display or output expression data with non-unique feature labels?
ExpressionData
ExpressionData
17.1 years ago
Kocherginsky, Masha [BSD] - HSD
▴ 10
0
votes
0
replies
1.3k
views
How to display or output expression data with non-unique feature labels?
Annotation
ExpressionData
Annotation
ExpressionData
17.1 years ago
Martin Morgan
25k
20 results • Page
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Replies
Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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42k
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Leonardo Collado Torres
★ 1.1k
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Gordon Smyth
51k
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