User: giovanni.dario

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Posts by giovanni.dario

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Comment: C: Using camera on a filtered expression matrix
... Dear Gordon, thank you so much for your kind and clear answer. I was asking because I recently had a gene set that, by design, was significantly associated with a data set (genes found to be up-regulated in an independent identical experiment under the same conditions) which, although ranking near t ...
written 2.8 years ago by giovanni.dario0
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Using camera on a filtered expression matrix
... Dear all, I have a question on the correct way to use camera with a filtered gene expression matrix. Let's assume that I have a n * m expression matrix (array or RNA-Seq, it doesn't matter) and that after filtering the features below a certain intensity/cpm, I am left with a matrix n' * m, being k ...
limma camera gene set analysis written 2.8 years ago by giovanni.dario0 • updated 2.8 years ago by Gordon Smyth32k
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DNAcopy default settings and SNP6.0 arrays
... Dear all, I have a general question concerning the use of DNAcopy with high density SNP/CN arrays. If I understand correctly (which certainly might not be the case), the default settings of DNAcopy were chosen to work well with low density CGH arrays. However in the case of high density arrays like ...
snp dnacopy snp6.0 cnv written 2.8 years ago by giovanni.dario0

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