Bioconductor Paired end

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Rsubread paired end featureCounts

updated 5.6 years ago by Wei Shi ★ 3.6k • written 5.6 years ago by hauken_heyken ▴ 80

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Comment: DESeq2 adujsted p-value cutoff seemingly not working by Guilherme • 0

Thank you for your answer So the proper way to conduct the analysis is to put the filters in the results() function and later filter the da…

Comment: DiffBind - observation that the default union overlap is actually a gap of 1 bp by Ian D. ▴ 70

Please can you comment on this @rory.

Comment: Why the order of sample names in the beta matrix affect the analysis results of by 81becky • 0

It sounds like you're experiencing a common issue with data alignment in Champ.DMP. Ensure that your beta matrix and PD files are consisten…

Comment: accounting for vs. removing batch effects with DESeq2 in RNAseq analysis by Blair • 0

@[Sprunki][1] wrote: Please read the vignette and think about adhering to the author's best practice, which discusses batch impacts. [1…

Comment: error in ChAMP loading file by 81becky • 0

hi Giulia, it sounds like you're facing a frustating issue with your chAMP import. One common suggestion is to double-check your CSV fomat…

Votes

DESeq2 1.20.0 lfcshrink function

A: LIMMA on RT-PCR data

A: Effect of lfcThreshold on p-value in DESeq2

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