Biostar HELP

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help DESeq2 DESeqDataSetFromMatrix rownames

updated 3 months ago by Kevin Blighe 3.2k • written 3 months ago by dorina.jamniczky • 0

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253

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RNASeqData RNASeq GEO RNASeqR HELP

3 months ago hgalmoore • 0

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help software error

updated 2.6 years ago by Martin Morgan 25k • written 2.6 years ago by mafusa20 • 0

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limma time series help

updated 2.6 years ago by Aaron Lun ★ 27k • written 2.6 years ago by rm1238 • 0

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clusterprofiler input files error help

updated 4.4 years ago by Guangchuang Yu ★ 1.2k • written 4.4 years ago by Mataivic • 0

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edger differential gene expression without replicate nested design help

updated 5.1 years ago by Aaron Lun ★ 27k • written 5.1 years ago by knipehf • 0

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R deseq2 differential gene expression help

5.1 years ago fischer87 • 0

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limma help

updated 5.7 years ago by svlachavas ▴ 780 • written 5.7 years ago by libya.tahani • 0

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Comment: Best practice for quantifying sncRNA by Abhishek • 0

I wonder what would be a good metric to assess the quantification quality

Comment: Best practice for quantifying sncRNA by Abhishek • 0

Thank you for sharing your thoughts. I used Salmon and indexed using hg38 gencodes transcriptome. After the tximport step, I ended up gett…

Comment: DESeq2 question: why I got discrepancy results for DEGs when using different way by Ming ▴ 350

Thx so much for the diagnosis and advice. Indeed, in my data, some genes have all 0 for all sampes of a contrast for both "Mut" and "WT" gr…

Comment: Best practice for quantifying sncRNA by Steve Lianoglou 13k

> It's my opinion that miRNA is a mirage intended to make MDs salivate and biostatisticians wail in misery, but what do I know? I'll tell …

Comment: Idea: Using DESeq2 to test a change in ratio of two genes by Michael Love 33k

Yes, it's true that we take the reference gene(s) as a noise free measurement of the reference variation with this approach, and control ag…

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Comment: Idea: Using DESeq2 to test a change in ratio of two genes

Time Series Analysis

Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels

Answer: Time series DE gene analysis with edgeR where specific timepoints have NA levels

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