Showing : geneanswers • reset
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categories can not be recognized in Bioconductor/GeneAnswers
geneanswers
updated 8.0 years ago by 52k • written 8.0 years ago by • 0
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GeneAnswer for bacteria metagenomes
geneanswers metagenome kegg
updated 8.5 years ago by ★ 1.2k • written 10.1 years ago by ▴ 100
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Re: GenesAnswers for Arabidopsis!
GeneAnswers annotation Arabidopsis GO
9.5 years ago lhuang7 ▴ 50
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Gene Ontologies exploration
goProfiles GeneAnswers goProfiles GeneAnswers
updated 11.9 years ago by ★ 7.2k • written 11.9 years ago by ▴ 310
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[Geneanswers] About the meaning of colours in networks
Network GeneAnswers Network GeneAnswers
12.1 years ago Enrico Ferrero ▴ 10
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help ith GeneAnswers / annotation package
Annotation GO oligo GeneAnswers Annotation GO oligo GeneAnswers
12.2 years ago Ingrid Mercier ▴ 60
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question about getGOList in GeneAnswers
GO GeneAnswers GO GeneAnswers
12.7 years ago Zhi Zhang ▴ 70
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Pie chart
GO GeneAnswers GO GeneAnswers
13.2 years ago Guest User ★ 13k
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question about xvfb-run GeneAnswers
GO GeneAnswers GO GeneAnswers
updated 13.2 years ago by 67k • written 13.2 years ago by ★ 1.3k
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NCI pathways to graphNEL
Pathways graph Rredland GeneAnswers Pathways graph Rredland GeneAnswers
13.9 years ago laurent jacob ▴ 100
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Error running GeneAnswers and Rgraphviz
Rgraphviz GeneAnswers Rgraphviz GeneAnswers
updated 13.9 years ago by ▴ 340 • written 13.9 years ago by ▴ 10
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Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k
Since the intra-block correlation is negative, it would be best to remove `block` from the model. My experience with genetically identical…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by anna.cot.anna.cot ▴ 30
Thank you! This is actually quite close to my real dataset. I simplified the names to make it easier as an example, but I have now correcte…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Tim Peters ▴ 200
Hi Xiaofei, Is it possible to generate a matrix of beta values or M-values with rownames as probe IDs from this data? If so, cpg.annotate(…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k
That looks basically correct, although the terms that you are inputing to `makeContrasts` do not match the condition names in the targets f…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by James W. MacDonald 67k
Oh, right. There's two ways to enter code. If you are in the middle of a sentence and you want to include a function name, you wrap the nam…
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Answer: nightmare to make custom txdb for genomes from ToxoDB
Comment: nightmare to make custom txdb for genomes from ToxoDB
Answer: Normalizing batch effects using technical replicates for DGE analysis between tw
Answer: nightmare to make custom txdb for genomes from ToxoDB
A: Advice on correcting for batch effect using DESeq2
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