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Venndiagram files text

3.0 years ago ratto • 0

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files gzip

6.0 years ago psschlogl • 0

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Files TXT

updated 6.2 years ago by Gordon Smyth 53k • written 6.2 years ago by ekl • 0

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merge files R packages gene annotations

6.4 years ago mohammedtoufiq91 ▴ 10

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deseq2 tximport file.path files file.exists

6.9 years ago Leo K • 0

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merge rnaseq files

updated 9.3 years ago by jayme.rickman • 0 • written 9.3 years ago by BioinfGuru ▴ 70

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Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0

Confirming my understanding after executing the code provided: this is similar to a design formula of `~0+mouse+group+group:allele`, except…

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.

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A: DESeq2: Is it possible to convert read counts to expression values via TPM and r

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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