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0
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634
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Comment: Comment: How to correct for known and surrogate variables in DESeq2?
4 weeks ago nhaus ▴ 30
2
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1
reply
195
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Answer: Answer: ComplexHeatmap: change the names of a HeatmapAnnotation object
5 weeks ago nhaus ▴ 30
0
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1
reply
462
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Comment: Comment: Not fully paired differential gene expression analysis
5 weeks ago nhaus ▴ 30
0
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0
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311
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Comment: Comment: Surrogate variable analysis for paired RNA seq experiment
5 weeks ago nhaus ▴ 30
0
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1
reply
311
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Comment: Comment: Surrogate variable analysis for paired RNA seq experiment
5 weeks ago nhaus ▴ 30
0
votes
1
reply
311
views
Comment: Comment: Surrogate variable analysis for paired RNA seq experiment
5 weeks ago nhaus ▴ 30
3
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6
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311
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Surrogate variable analysis for paired RNA seq experiment
RUVSeq sva
5 weeks ago nhaus ▴ 30
0
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2
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462
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Comment: Comment: Not fully paired differential gene expression analysis
5 weeks ago nhaus ▴ 30
0
votes
2
replies
248
views
Interaction term vs grouping variable design considerations
DESeq2 DifferentialExpression
updated 5 weeks ago by 42k • written 6 weeks ago by ▴ 30
5
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6
replies
462
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Not fully paired differential gene expression analysis
edgeR DifferentialExpression
updated 5 weeks ago by ★ 4.1k • written 5 weeks ago by ▴ 30
0
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1
reply
510
views
Comment: Comment: locateVariant from VariantAnnotation returns wrong results
5 months ago nhaus ▴ 30
0
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1
reply
510
views
Comment: Comment: locateVariant from VariantAnnotation returns wrong results
5 months ago nhaus ▴ 30
0
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5
replies
510
views
locateVariant from VariantAnnotation returns wrong results
VariantAnnotation locateVariant
updated 5 months ago by 65k • written 5 months ago by ▴ 30
0
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3
replies
1.4k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 13 months ago by ▴ 30
1
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1
reply
684
views
Pseudobulk running all groups together vs subsetting first
DESeq2 edgeR SingleCell
updated 15 months ago by ★ 13k • written 15 months ago by ▴ 30
0
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1
reply
2.2k
views
Comment: Comment: Implementation of the "original" GSEA algorithm in R
16 months ago nhaus ▴ 30
0
votes
1
reply
611
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GSA type of input data
GSEA GSA vst
updated 16 months ago by 42k • written 16 months ago by ▴ 30
7
votes
6
replies
2.2k
views
Implementation of the "original" GSEA algorithm in R
clusterProfiler GSEA fgsea
updated 16 months ago by 50k • written 17 months ago by ▴ 30
2
votes
1
reply
1.3k
views
removeBatchEffect: Coefficients not estimable when using "batch matrix" for `covariates` argument.
limma BatchEffect
updated 23 months ago by 50k • written 23 months ago by ▴ 30
2
votes
3
replies
1.6k
views
Get MANE transcripts from TxDb.Hsapiens.UCSC.hg38.knownGene
AnnotationDbi
updated 9 months ago by 65k • written 2.0 years ago by ▴ 30
0
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0
replies
1.8k
views
Comment: Comment: Get corresponding gene id for probe id from Affymetrix array
2.0 years ago nhaus ▴ 30
0
votes
1
reply
1.8k
views
Comment: Comment: Get corresponding gene id for probe id from Affymetrix array
2.0 years ago nhaus ▴ 30
2
votes
5
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1.8k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.0 years ago nhaus ▴ 30
0
votes
0
replies
536
views
Using geNetClassifier with RNA seq data
geNetClassifier Normalization
2.1 years ago nhaus ▴ 30
0
votes
1
reply
1.9k
views
Comment: Comment: AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is requi
2.2 years ago nhaus ▴ 30
0
votes
2
replies
1.9k
views
AnnotationHub installation ‘Rcpp’ 1.0.6 is already loaded, but >= 1.0.7 is required
AnnotationHub Install
updated 2.2 years ago by 3.9k • written 2.2 years ago by ▴ 30
0
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1
reply
6.8k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.2 years ago nhaus ▴ 30
0
votes
1
reply
6.8k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.2 years ago nhaus ▴ 30
0
votes
1
reply
6.8k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.2 years ago nhaus ▴ 30
9
votes
13
replies
6.8k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 3 months ago by ★ 4.1k • written 2.2 years ago by ▴ 30
0
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1
reply
6.8k
views
Comment: Comment: GSEA many significant gene sets despite no differentially expressed genes
2.2 years ago nhaus ▴ 30
0
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0
replies
940
views
Comment: Comment: Including squared covariates to account for non-linear dependencies in different
2.2 years ago nhaus ▴ 30
2
votes
3
replies
940
views
Including squared covariates to account for non-linear dependencies in differential gene expression analysis
limma DifferentialExpression
2.2 years ago nhaus ▴ 30
1
vote
1
reply
1.1k
views
How to determine if limma can adjust for batch effect
BatchEffect limma sva DifferentialExpression
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by ▴ 30
0
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0
replies
1.7k
views
Comment: Comment: What to do if covariates in design matrix of limma are confounded
2.2 years ago nhaus ▴ 30
0
votes
2
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1.7k
views
Comment: Comment: What to do if covariates in design matrix of limma are confounded
2.2 years ago nhaus ▴ 30
4
votes
5
replies
1.7k
views
What to do if covariates in design matrix of limma are confounded
limma DifferentialExpression
updated 2.0 years ago by • 0 • written 2.2 years ago by ▴ 30
37 results • Page 1 of 1
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