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999
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normalizeWithArray with method of "control" in limma package
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Does any one know a package that allow command line dChip normalization with a specific median array?
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readChp in affxparser
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17.1 years ago Justin Zhang ▴ 30
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Does any one know a package that allow command line dChip normalization with a specific median array?
updated 17.1 years ago by ★ 2.4k • written 17.1 years ago by ▴ 110
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discrepancies using different gcRMA
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updated 17.1 years ago by ▴ 260 • written 17.1 years ago by ▴ 20
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updated 17.1 years ago by ▴ 190 • written 17.1 years ago by ▴ 380
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Talk & Poster - Final Call - qPCR 2009 Event
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17.1 years ago qPCR Platform - the reference in real-t… ▴ 170
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updated 17.1 years ago by ▴ 140 • written 17.1 years ago by ▴ 360
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use alternative CDF in aroma.affymetrix in linux
cdf cdf
updated 17.1 years ago by ▴ 200 • written 17.1 years ago by ★ 1.0k
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Bioc-devel Digest, Vol 57, Issue 4
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17.1 years ago rcaloger ▴ 500
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17.1 years ago Jennifer Clarkson ▴ 10
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biomaRt difference from biomart.org?
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A CGH platform question
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updated 17.1 years ago by ★ 2.4k • written 17.1 years ago by ▴ 70
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updated 17.1 years ago by ▴ 970 • written 17.1 years ago by ▴ 70
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RMA error in cdf environment with removed probes (Yeast2)
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updated 17.1 years ago by ★ 2.0k • written 17.1 years ago by ▴ 70
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read.maimages in limma package
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17.1 years ago Giusy Della Gatta ▴ 110
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updated 17.1 years ago by ★ 6.0k • written 17.1 years ago by ▴ 110
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17.1 years ago cstrato ★ 3.9k
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2
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How to retrieve 'conservation score' sequence?
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updated 17.1 years ago by ▴ 620 • written 17.1 years ago by ★ 4.1k
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targets frame
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KEGG.db in GoStats with Streptomyces coelicolor
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17.1 years ago greenware Richards ▴ 10
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updated 17.1 years ago by 25k • written 17.1 years ago by ▴ 70
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combineAffyBatch problem
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17.1 years ago Rifat A Hamoudi ▴ 50
46,732 results • Page 728 of 935
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Answer: lfc shrinkage estimator in DESeq2 by plumsgorillas • 0
You are on the right track. In DESeq2, raw log2 fold changes are often noisy and can be misleading, especially for genes with low counts. A…
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The uncertainty of quantification is fully accounted for in the dpcDE() analysis, including in the computation of sample weights. However,…
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Try the vignette which has a lot of information on these type of questions.
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The DPC slope is beta1. The estimated slopes for your data look pretty low, lower than I've ever used for a real dataset. Nevertheless, as …
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Thanks for your feedback and for reassuring me. :-) As you suggested, I tried dpcCN() and set the slope to 0.7 in addition to the standard…
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