Showing : StatisticalMethod • reset
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Detecting genomic signatures of drug resistance breast cancer in transcriptomic data
TransOmicsData signatureSearchData StatisticalMethod
written 8 weeks ago by • 0
0
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1
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373
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Can we compare 3 different experimental conditions with DESeq2?
DESeq2 StatisticalMethod
updated 7 months ago by ★ 1.4k • written 7 months ago by • 0
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308
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Job: Post-Doc: Development of a new method to study the distribution of the effect sizes of QTL
StatisticalMethod Evolution QuantitativeTrailLocus Genetics JobPosting
8 months ago pierre.devillemereuil • 0
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3
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868
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Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 8 months ago by ★ 4.6k • written 8 months ago by • 0
2
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2
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2.2k
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DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
12 months ago Linton • 0
1
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2
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906
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How to perform longitudinal analysis using EdgeR
StatisticalMethod FoldChange edgeR RNASeq
13 months ago Sabiha ▴ 20
2
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2
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732
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DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression DESeq2 RNASeqData RNASeq StatisticalMethod
14 months ago Manthos • 0
5
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2
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1.4k
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DecideTest vs topTAGs in edgeR
RNAseq StatisticalMethod edgeR
updated 14 months ago by 52k • written 15 months ago by ▴ 10
3
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2
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912
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Does this RNAseq experiment require a repeated measures approach?
StatisticalMethod RNASeqData edgeR DESeq2
updated 19 months ago by 52k • written 19 months ago by ▴ 30
2
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3
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2.8k
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deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 22 months ago by ★ 4.6k • written 22 months ago by ▴ 10
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4
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982
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Model comparison in mean-dispersion trend in DESeq2
DESeq2 StatisticalMethod
23 months ago Loïc • 0
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1.0k
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Using Multi-Dimensional Scaling (MDS) to produce a vector in order to account for patient bias when constructing DGE lists from RNA-seq datasets in R?
PrincipalComponent StatisticalMethod edgeR MultidimensionalScaling Normalization
23 months ago rcreswell01 • 0
1
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3
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1.3k
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Limma-voom with inverse probability weights (similar to sample weights)
limma limma-voom StatisticalMethod
updated 24 months ago by 52k • written 24 months ago by ▴ 10
0
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1
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686
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DESeq2 paired multifactor test
DESeq2 StatisticalMethod
updated 2.1 years ago by 43k • written 2.2 years ago by ▴ 10
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816
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Job: Academic position in Non-clinical Biostatistics
JobPosting StatisticalMethod
2.2 years ago Laurent Gatto 1.6k
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1.3k
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Limma adj.p.value the same for many different p.values
limmaGUI limma adj.p.value StatisticalMethod
2.3 years ago walkerrh95 • 0
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1.1k
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Job: Postdoctoral research scientist in computational biology/statistical genetics/functional genomics at Columbia University, USA
Alzheimer's StatisticalMethod Genetics molecularQTL FunctionalGenomics
2.4 years ago gaow • 0
0
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0
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711
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Should I adjust p value for multi-levels (groups) and multi-variables?
StatisticalMethod
2.8 years ago dong ▴ 10
2
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3
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4.8k
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Differential gene expression and (adjusted) p-values
edgeR StatisticalMethod
updated 2.7 years ago by • 0 • written 3.0 years ago by • 0
6
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4
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1.3k
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Limma prametrization
limm MathematicalBiology limmaGUI StatisticalMethod
3.0 years ago Giovanni • 0
2
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7
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1.8k
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EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on individual patients not combined
edgeR StatisticalMethod
3.4 years ago • updated 3.3 years ago Field -Ye • 0
0
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2
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1.8k
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To retrieve the transcript from gff file with the longest isoform
FunctionalAnnotation StatisticalMethod
3.6 years ago Aneesha • 0
0
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1
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925
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DESeq2 Design matrix
StatisticalMethod DESeq2
updated 3.7 years ago by 43k • written 3.7 years ago by • 0
6
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6
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2.0k
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limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics limma StatisticalMethod
updated 3.8 years ago by 52k • written 3.9 years ago by ▴ 10
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3
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1.4k
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How to assign random effect factor in DESeq2 desing?
StatisticalMethod DESeq2 phyloseq
updated 3.9 years ago by 43k • written 3.9 years ago by • 0
0
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0
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1.5k
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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
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2
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883
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p adjusted value not available
StatisticalMethod DESeq2
updated 4.2 years ago by ★ 4.0k • written 4.2 years ago by • 0
27 results • Page 1 of 1
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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…
Comment: EdgeR Biological CVs by James • 0
Thank you Gordon and Joseph. I presume question (1) would be answered by using a prior G0 of 0? For question (2), I was expecting a biolog…
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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Popular Question to Gordon Smyth 52k
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Popular Question to shepherl 4.1k
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