Showing : StatisticalMethod • reset
3
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p-adjusted values in multiple comparisons
StatisticalMethod limma RnaSeqSampleSizeData
updated 10 weeks ago by • 0 • written 3 months ago by • 0
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Correlation threshold
MethylationArray methylationArrayAnalysis StatisticalMethod
8 months ago user_bioinfo • 0
1
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449
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Detecting genomic signatures of drug resistance breast cancer in transcriptomic data
TransOmicsData signatureSearchData StatisticalMethod
written 12 months ago by • 0
0
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724
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Can we compare 3 different experimental conditions with DESeq2?
DESeq2 StatisticalMethod
updated 17 months ago by ★ 1.4k • written 18 months ago by • 0
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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
18 months ago pierre.devillemereuil • 0
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Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 19 months ago by ★ 5.0k • written 19 months ago by • 0
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DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
23 months ago Linton • 0
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How to perform longitudinal analysis using EdgeR
StatisticalMethod FoldChange edgeR RNASeq
23 months ago Sabiha ▴ 20
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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
2.0 years ago Manthos • 0
5
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DecideTest vs topTAGs in edgeR
RNAseq StatisticalMethod edgeR
updated 2.1 years ago by 53k • written 2.1 years ago by ▴ 10
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Does this RNAseq experiment require a repeated measures approach?
StatisticalMethod RNASeqData edgeR DESeq2
updated 2.4 years ago by 53k • written 2.4 years ago by ▴ 30
2
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3
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deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 2.7 years ago by ★ 5.0k • written 2.7 years ago by ▴ 10
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4
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Model comparison in mean-dispersion trend in DESeq2
DESeq2 StatisticalMethod
2.8 years ago Loïc • 0
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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
2.8 years ago rcreswell01 • 0
1
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3
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1.7k
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Limma-voom with inverse probability weights (similar to sample weights)
limma limma-voom StatisticalMethod
updated 2.8 years ago by 53k • written 2.8 years ago by ▴ 10
0
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844
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DESeq2 paired multifactor test
DESeq2 StatisticalMethod
updated 3.0 years ago by 43k • written 3.1 years ago by ▴ 10
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1.0k
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Job: Academic position in Non-clinical Biostatistics
JobPosting StatisticalMethod
3.1 years ago Laurent Gatto 1.6k
1
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Limma adj.p.value the same for many different p.values
limmaGUI limma adj.p.value StatisticalMethod
3.2 years ago walkerrh95 • 0
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1.4k
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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
3.2 years ago gaow • 0
0
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0
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838
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Should I adjust p value for multi-levels (groups) and multi-variables?
StatisticalMethod
3.7 years ago dong ▴ 10
2
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3
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6.2k
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Differential gene expression and (adjusted) p-values
edgeR StatisticalMethod
updated 3.6 years ago by • 0 • written 3.8 years ago by • 0
6
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4
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1.6k
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Limma prametrization
limm MathematicalBiology limmaGUI StatisticalMethod
3.9 years ago Giovanni • 0
2
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7
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2.2k
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EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on individual patients not combined
edgeR StatisticalMethod
4.2 years ago Field -Ye • 0
0
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2.2k
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To retrieve the transcript from gff file with the longest isoform
FunctionalAnnotation StatisticalMethod
4.4 years ago Aneesha • 0
0
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1
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1.2k
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DESeq2 Design matrix
StatisticalMethod DESeq2
updated 4.5 years ago by 43k • written 4.5 years ago by • 0
6
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6
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2.5k
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limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics limma StatisticalMethod
updated 4.7 years ago by 53k • written 4.7 years ago by ▴ 10
1
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3
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1.7k
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How to assign random effect factor in DESeq2 desing?
StatisticalMethod DESeq2 phyloseq
updated 4.8 years ago by 43k • written 4.8 years ago by • 0
0
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0
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1.7k
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Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network StatisticalMethod WGCNA ExpressionData
4.9 years ago jol.espinoz ▴ 40
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1.1k
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p adjusted value not available
StatisticalMethod DESeq2
updated 5.0 years ago by ★ 4.0k • written 5.0 years ago by • 0
29 results • Page 1 of 1
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Replies
Comment: upstream git branches of bioc-release by TrentonCollier99 • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments. https://bioc-release.r-univ…
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Comment: Large logFC but somewhat high FDR by JKim • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.
Comment: upstream git branches of bioc-release by Jeroen ▴ 10
OK I have updated https://bioc-release.r-universe.dev accordingly. Let me know if you find version differences when mirroring binaries.
Comment: Large logFC but somewhat high FDR by Gordon Smyth 53k
I don't know what `tp1` is. The relevant histogram would be: ``` hist(fit2$p.value[,"KO_vs_WT"]) ```
Votes
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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