Bioconductor Foldchange

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StatisticalMethod FoldChange edgeR RNASeq

12 months ago Sabiha ▴ 20

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4.4k

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FoldChange DiffBind lfcShrink

updated 17 months ago by Rory Stark ★ 5.2k • written 17 months ago by bhandary.8590 ▴ 20

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1.2k

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FoldChange DiffBind lfcShrink Cut&TagData

18 months ago bhandary.8590 ▴ 20

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1.9k

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DESeq2 TPM Foldchange

updated 2.7 years ago by Michael Love 43k • written 2.7 years ago by dadca596 • 0

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1.1k

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edgeR RNA-Seq log2 foldchange q_value

updated 2.9 years ago by Gordon Smyth 52k • written 2.9 years ago by johndavidgriner74 • 0

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1.4k

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sign FoldChange DESeq2 reference

updated 3.0 years ago by Michael Love 43k • written 3.0 years ago by yampolsk • 0

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6.3k

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DifferentialExpression DEA FC FoldChange edgeR

3.3 years ago zhxiaokang ▴ 20

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2.8k

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EdgeR RNAseq Foldchange

updated 3.5 years ago by swbarnes2 ★ 1.4k • written 3.5 years ago by najib • 0

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3.2k

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foldchange topGO DifferentialExpression enrichment

updated 4.1 years ago by Gordon Smyth 52k • written 4.1 years ago by lessismore ▴ 20

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1.7k

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limma microarray foldchange DEG GEO

updated 4.9 years ago by Gordon Smyth 52k • written 4.9 years ago by Pietro ▴ 40

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1.6k

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DEXSeq DTU salmon rnaseqDTU foldchange

updated 5.7 years ago by Michael Love 43k • written 5.9 years ago by fiona.dick91 ▴ 60

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1.6k

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limma RNAseq foldchange

5.8 years ago susana.amaral.teixeira ▴ 20

12 results • Page 1 of 1

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

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…

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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