Showing : pd.hugene.2.0.st • reset
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Correct annotation R package for human clariom array analysis
clariom oligo affycoretools pd.hugene.2.0.st
updated 2.3 years ago by 57k • written 2.3 years ago by ▴ 780
9
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6
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2.7k
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Preprocessing of Human Gene 2.0 ST microarrays with oligo R package and annotation options
microarray oligo affycoretools pd.hugene.2.0.st hugene20sttranscriptcluster.db
updated 4.4 years ago by 57k • written 4.4 years ago by ▴ 780
0
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0
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795
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Reading Affymetrix data from pd.hugene.2.0.st using oligo for RNA degradation plot
oligo rnadegradationplot affymetrix microarrays pd.hugene.2.0.st
5.3 years ago Biologist ▴ 90
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10
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1.1k
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Limma/oligo always crashing
limma microarray pd.hugene.2.0.st hugene20 oligo
5.4 years ago hakimelakhrass • 0
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5
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924
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HuGene2.0 array annotation
annotation oligo pd.hugene.2.0.st
5.6 years ago sylvia ▴ 10
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8
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951
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boxplot, microarray, hugene 2.0 st
boxplot microarray pd.hugene.2.0.st
6.2 years ago kanacska ▴ 10
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3
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1.7k
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Reading Affymetrix data from pd.hugene.2.0.st using affy
affy pd.hugene.2.0.st hugene20 annotation microarray
6.2 years ago kanacska ▴ 10
6
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5
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1.1k
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Limma ebayes returns a list with Affy pd.hugene.2.0.st arrays
ebayes expression affymetrix pd.hugene.2.0.st limma
updated 6.4 years ago by 43k • written 6.4 years ago by ▴ 200
8 results • Page 1 of 1
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Comment: DESeq2: Variable Importance by lolol • 0
Ah yes, I see the deviance now in mcols. Would I use this to calculate the pseudo R-squared (McFaddens), comparing each model with a single…
Answer: How to do annotation with Limma by Guido Hooiveld ★ 3.0k
For the HTA2.0 arrays should not use `hgu95av2.db`, which is the annotation library for the, ehh, human U95 set of Affymetrix arrays! You s…
Comment: DESeq2: Variable Importance by Michael Love 33k
Yes, `deviance` is an output in the `mcols`, so you could rotate through variables, excluding them in the LRT. Or you could use the other p…
Answer: Hard coding in DiffBind DBA.R line 968 by Rory Stark ★ 3.9k
Thank you for noticing and reporting this potential issue relating to the minimum number of sample replicates required to form a contrast. …
Comment: DESeq2: Variable Importance by lolol • 0
When you say observing the deviance, you mean utilizing the likelihood ratio test with the reduced model (exclude the last variable). Am I …
Votes
Answer: How to do annotation with Limma
Final List of Deprecated Packages for Bioc3.13
Answer: RNAseq : identical sample-sample distances after using limma::removeBatchEffect
Answer: RNAseq : identical sample-sample distances after using limma::removeBatchEffect
Comment: Use of arrayWeights with two treatment groups
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Popular Question to Guido Hooiveld ★ 3.0k
Popular Question to Gordon Smyth 43k
Popular Question to yueli7 ▴ 10
Scholar to Michael Love 33k
Scholar to Hervé Pagès 15k
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