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Showing :
ExpressionData
•
reset
3
votes
2
replies
713
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools
limma
ExpressionData
RNASeq
edgeR
8 months ago
mohammedtoufiq91
▴ 10
0
votes
1
reply
526
views
Time change in expression vs time change in phenotype
Transcriptomics
ExpressionData
DESeq2
updated 21 months ago by
Michael Love
43k • written 21 months ago by
Ivan
• 0
0
votes
2
replies
817
views
Doubt about expression data as well as assay
GEOquery
ExpressionData
assay
SummarizedExperiment
ExpressionAtlas
updated 22 months ago by
pmadrigal
• 0 • written 22 months ago by
Kritikaverma2707
• 0
3
votes
2
replies
764
views
please resolve the issue
gene
ExpressionData
updated 22 months ago by
James W. MacDonald
67k • written 22 months ago by
sonal
• 0
1
vote
2
replies
3.5k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma
R
ExpressionData
updated 23 months ago by
Gordon Smyth
52k • written 2.0 years ago by
Keith
• 0
0
votes
3
replies
1.0k
views
expression data
ExpressionData
ExpressionNormalizationWorkflow
updated 2.3 years ago by
James W. MacDonald
67k • written 2.3 years ago by
Upasana
• 0
0
votes
0
replies
709
views
edgeR testing interactions between two factors while controlling for blocking factor
edgeR
ExpressionData
RNASeqData
2.8 years ago
Mafalda
• 0
0
votes
1
reply
894
views
HSMMSingleCell metadata
ExperimentHubData
ExpressionData
CellDataSet
RNASeqData
2.8 years ago
karl.stamm
▴ 10
2
votes
2
replies
1.0k
views
Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression
DESeq2
ExpressionData
updated 2.8 years ago by
fivescarynightsgames
• 0 • written 2.9 years ago by
reza
▴ 10
0
votes
3
replies
1.1k
views
Error in loading data set
ExpressionData
updated 3.0 years ago by
Basti
▴ 780 • written 3.0 years ago by
Muhammad
• 0
0
votes
0
replies
666
views
Gene expression changes in one condition
RNASeq
Gene
ExpressionData
3.2 years ago
AZ
▴ 30
0
votes
2
replies
2.0k
views
PCA and heatmaps: most variable genes selection
DESeq2
ExpressionData
heatmaps
pca
3.6 years ago
Clara
▴ 10
3
votes
2
replies
1.4k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData
ArrayExpress
updated 3.8 years ago by
Gordon Smyth
52k • written 3.8 years ago by
Gero
• 0
1
vote
3
replies
1.2k
views
DESeq analysis with Biological replicate.
DESeq2
ExpressionData
GeneExpression
updated 4.0 years ago by
Michael Love
43k • written 4.0 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
4.0 years ago
jol.espinoz
▴ 40
0
votes
1
reply
877
views
Function createExpressionSet: Creating an ExpressionSet - Which package needed?
ExpressionData
updated 4.1 years ago by
Michael Love
43k • written 4.1 years ago by
Bine
▴ 50
0
votes
0
replies
945
views
nested design with random factor and limma???
ExpressionData
limma
ExpressionData
limma
16.5 years ago
Gordon Smyth
52k
1
vote
0
replies
940
views
nested design with random factor and limma???
ExpressionData
limma
ExpressionData
limma
16.5 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
17.6 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
17.6 years ago
Martin Morgan
25k
20 results • Page
1 of 1
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Replies
Comment: contrast matrix design for a continuous variable
by
dtzhu337
• 0
Hi Gordon, Thank you very much for your answer. Actually the variable X is the age, which I am also interested in. Somehow, age and V1 are…
Answer: SingleCellExperiment convenience function for metadata+expression?
by
Peter Hickey
▴ 740
Hi Sarah, `scuttle::makePerCellDF()` / `scuttle::makePerFeatureDF()` and `scater::ggcells()` / `scater::ggfeatures()`, which build upon th…
Comment: How to sort negative log2FC or FC in RNAseq for GSEA?
by
QN
▴ 10
Thank you ATpoint for your response! In the result of GSEA, like you indicated, there will be gene sets that have positive NES and gene se…
Comment: EdgeR Biological CVs
by
ATpoint
★ 4.6k
"Joseph" is a spam bot...
Answer: How to sort negative log2FC or FC in RNAseq for GSEA?
by
ATpoint
★ 4.6k
GSEA asks whether there are general shifts in gene expression towards certain terms. Hence, you would not split your results tables but ord…
Votes
How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
Answer: EdgeR Biological CVs
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
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