Showing : StatisticalMethod • reset
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Detecting genomic signatures of drug resistance breast cancer in transcriptomic data
TransOmicsData signatureSearchData StatisticalMethod
updated 28 days ago by 67k • written 28 days ago by • 0
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1
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344
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Can we compare 3 different experimental conditions with DESeq2?
DESeq2 StatisticalMethod
updated 6 months ago by ★ 1.4k • written 6 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
7 months ago pierre.devillemereuil • 0
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3
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802
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Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 7 months ago by ★ 4.6k • written 7 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
11 months ago Linton • 0
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865
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How to perform longitudinal analysis using EdgeR
StatisticalMethod FoldChange edgeR RNASeq
12 months ago Sabiha ▴ 20
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708
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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
13 months ago Manthos • 0
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DecideTest vs topTAGs in edgeR
RNAseq StatisticalMethod edgeR
updated 13 months ago by 52k • written 14 months ago by ▴ 10
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893
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Does this RNAseq experiment require a repeated measures approach?
StatisticalMethod RNASeqData edgeR DESeq2
updated 18 months ago by 52k • written 18 months ago by ▴ 30
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3
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2.8k
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deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 21 months ago by ★ 4.6k • written 21 months ago by ▴ 10
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4
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966
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Model comparison in mean-dispersion trend in DESeq2
DESeq2 StatisticalMethod
22 months ago Loïc • 0
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2
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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
22 months ago rcreswell01 • 0
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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 22 months ago by 52k • written 23 months ago by ▴ 10
0
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675
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DESeq2 paired multifactor test
DESeq2 StatisticalMethod
updated 2.1 years ago by 43k • written 2.1 years ago by ▴ 10
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Job: Academic position in Non-clinical Biostatistics
JobPosting StatisticalMethod
2.1 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
2.2 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
2.3 years ago gaow • 0
0
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0
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699
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Should I adjust p value for multi-levels (groups) and multi-variables?
StatisticalMethod
2.7 years ago dong ▴ 10
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3
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4.6k
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Differential gene expression and (adjusted) p-values
edgeR StatisticalMethod
updated 2.6 years ago by • 0 • written 2.9 years ago by • 0
6
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4
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1.2k
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Limma prametrization
limm MathematicalBiology limmaGUI StatisticalMethod
2.9 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
3.3 years ago Field -Ye • 0
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2
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1.7k
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To retrieve the transcript from gff file with the longest isoform
FunctionalAnnotation StatisticalMethod
3.5 years ago Aneesha • 0
0
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1
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906
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DESeq2 Design matrix
StatisticalMethod DESeq2
updated 3.6 years ago by 43k • written 3.6 years ago by • 0
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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 3.8 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 3.8 years ago by 43k • written 3.8 years ago by • 0
0
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0
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1.4k
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Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network StatisticalMethod WGCNA ExpressionData
3.9 years ago jol.espinoz ▴ 40
0
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2
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871
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p adjusted value not available
StatisticalMethod DESeq2
updated 4.1 years ago by ★ 4.0k • written 4.1 years ago by • 0
27 results • Page 1 of 1
Recent ...
Replies
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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