Bioconductor DESE

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RUVSeq DESeq2 dese

17 months ago BioinfGuru ▴ 70

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DESeq2 Dese

updated 22 months ago by Michael Love 43k • written 22 months ago by Léa • 0

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DESeq2 dese

written 23 months ago by Xu • 0

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dese DESeq2

24 months ago pl23 • 0

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dese DESeq2

2.1 years ago Hugo • 0

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DESe DESeq2

2.5 years ago Adèle • 0

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Dese DESeq2

2.6 years ago Asger Mølgaard • 0

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DESeq2 lfcshrink DESe

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

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DESeq2 Dese DifferentialRegulation differe

updated 19 months ago by ij283 • 0 • written 2.8 years ago by Bernardo ▴ 10

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dese DESeq2

updated 3.7 years ago by James W. MacDonald 68k • written 3.7 years ago by lmrogers34 ▴ 10

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DESE DESeq2

updated 3.7 years ago by Basti ▴ 780 • written 3.7 years ago by Maryam.sed1400 • 0

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DESeq2 dese

4.0 years ago aedavids ▴ 20

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DESeq2 dese

4.2 years ago wilfried.guiblet • 0

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DESe DESeq2

updated 4.3 years ago by Michael Love 43k • written 4.3 years ago by Dinesh • 0

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DESeq2 DESe

updated 4.9 years ago by Michael Love 43k • written 4.9 years ago by glennli • 0

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DESeq2

updated 5.2 years ago by Michael Love 43k • written 5.2 years ago by hpapoli • 0

16 results • Page 1 of 1

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Comment: Combining two proteomics datasets with limpa by Andrew Pattison • 0

Thanks heaps Gordon. I went with option 1 and no normalisation and all seems to have worked well. Cheers, Andrew

Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k

Flagging protein groups as likely contaminants in this way will be fine for a limpa analysis. The `Cont_` proteins can optionally stay in f…

Answer: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Gordon Smyth 53k

Aaron Lun was a PhD student in my Lab back in 2015, when he posted the answers about allele-specific expression that you and Mike Love have…

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Michael Love 43k

You just need the mouse identifier (controls baseline) and the group specific allelic effect.

Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Julia Broadbent • 0

Hi Emily, Just sharing a resource for handling contaminants - we use the methods described in [Frankenfield et al. (2022)](https://pubs.acs…

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A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen

Comment: limpa analysis advice

Answer: When to use edgeR or limma

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