Bioconductor Fold change

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5.8k

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R deseq2 edger differential gene expression fold change

updated 2.6 years ago by ATpoint ★ 4.6k • written 6.5 years ago by Beginner ▴ 60

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2.6k

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diffBind Fold Change

updated 3.6 years ago by Joe Nicholas • 0 • written 5.9 years ago by joseluis.ruiz • 0

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1.6k

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edger differential expression genes fold change

updated 5.5 years ago by Aaron Lun ★ 28k • written 5.5 years ago by ilovesuperheroes1993 • 0

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1.1k

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mfuzz fold change log2 STANDARDISATION

6.5 years ago prakashpandey1111 • 0

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1.6k

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ballgown stattest fold change

updated 6.8 years ago by James W. MacDonald 67k • written 6.8 years ago by Arindam ▴ 80

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1.7k

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logfc limma fold change

updated 8.3 years ago by Gordon Smyth 52k • written 8.3 years ago by Claudia ▴ 10

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2.7k

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edgeR DE analysis fold change cpm

updated 8.4 years ago by Ryan C. Thompson ★ 7.9k • written 8.4 years ago by Sara ▴ 20

7 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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