Bioconductor Permutation

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1.6k

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modulePreservation WGCNA modules significance permutation

7.6 years ago • updated 5.7 years ago harelarik ▴ 60

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803

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permutation randomization

5.8 years ago Bogdan ▴ 670

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1.6k

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permutation pool chippeakanno

7.4 years ago ge2sasag • 0

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illumina plink permutation

updated 9.5 years ago by James W. MacDonald 68k • written 9.5 years ago by sedrinne • 0

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deseq2 limma edger permutation

updated 2.0 years ago by Gordon Smyth 53k • written 9.8 years ago by Radek ▴ 90

5 results • Page 1 of 1

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Comment: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

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.

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Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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