Bioconductor GAGE package

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gage package gage

7.5 years ago melkile26 • 0

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gage gage package gene expression matrix gene set analysis

7.5 years ago atakanekiz ▴ 30

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3.4k

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gage package error

updated 7.7 years ago by James W. MacDonald 68k • written 7.7 years ago by Miskey, Csaba ▴ 20

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gage gage package pathview rna-seq

updated 3.9 years ago by Helen • 0 • written 7.9 years ago by tarun2 • 0

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2.9k

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kegg geneset genelist gage package

updated 8.4 years ago by Gordon Smyth 53k • written 8.4 years ago by sup230 ▴ 30

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1.8k

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gage package deseq2

8.5 years ago sup230 ▴ 30

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2.2k

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gage gage package

updated 9.2 years ago by Luo Weijun ★ 1.6k • written 9.3 years ago by Michael • 0

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1.9k

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R gage package rnaseq pathview

9.4 years ago joanito.liberti • 0

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1.3k

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gage package path.ids RNA-Seq

9.5 years ago rl1385 • 0

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1.3k

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t-test GAGE package Kolmogorov-Smirnov test Gene-Set enrichment

9.5 years ago smt8n • 0

10 results • Page 1 of 1

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Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by ATpoint ★ 5.0k

Yes, still it's not reproducible, yet hard to debug. I cannot reproduce myself either.

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Benjamin • 0

Still happening using pre-existing size factors estimating dispersions gene-wise dispersion estimates: 15 workers mean-dis…

Answer: BiocParallel (and DESeq2) - wrong args for environment subassignment by Benjamin • 0

Still happening in a clean install

Comment: limpa analysis advice by Gordon Smyth 53k

Yes, we use Astral currently. The main dataset in the limpa preprint is Astral. I don't see any major problems with your data and I think …

Comment: limpa analysis advice by SamGG ▴ 360

Thank you for your comments. Please note that I did not apply any filtering to the peptide intensity. The experimental protocol includes tw…

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Comment: limpa analysis advice

Answer: When to use edgeR or limma

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