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Comment: C: limma warning: Coefficients not estimable
updated 6.0 years ago by 50k • written 14.2 years ago by ▴ 420
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3.7k
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Answer: A: How do you find your orthologues?
11.8 years ago k. brand ▴ 420
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How do you find your orthologues?
11.8 years ago k. brand ▴ 420
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Comment: C: package ‘DAVIDQuery’ is not available (for R version 2.14.0)
12.4 years ago k. brand ▴ 420
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Comment: C: package ‘DAVIDQuery’ is not available (for R version 2.14.0)
12.4 years ago k. brand ▴ 420
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1.8k
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Comment: C: package ‘DAVIDQuery’ is not available (for R version 2.14.0)
12.4 years ago k. brand ▴ 420
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8
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1.8k
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package ‘DAVIDQuery’ is not available (for R version 2.14.0)
updated 12.4 years ago by 25k • written 12.4 years ago by ▴ 420
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2.8k
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Comment: C: heatmap 'contrast': suggestions for a zlim adjustment in heatmap.2
13.7 years ago k. brand ▴ 420
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1
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2.8k
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Comment: C: heatmap 'contrast': suggestions for a zlim adjustment in heatmap.2
13.7 years ago k. brand ▴ 420
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4
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2.8k
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heatmap 'contrast': suggestions for a zlim adjustment in heatmap.2
updated 13.7 years ago by ▴ 430 • written 13.7 years ago by ▴ 420
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1.0k
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Answer: A: Another limma factorial that needs controlling and pairing
13.7 years ago k. brand ▴ 420
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1
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1.0k
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Answer: A: Another limma factorial that needs controlling and pairing
13.7 years ago k. brand ▴ 420
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1.7k
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Comment: C: heatplot() 1. red-*black*-green palette, 2.suppress drawing of the row dendrogra
13.7 years ago k. brand ▴ 420
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1
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1.7k
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Comment: C: heatplot() 1. red-*black*-green palette, 2.suppress drawing of the row dendrogra
13.7 years ago k. brand ▴ 420
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0
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1.2k
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Answer: A: heatplot() 1. red-*black*-green palette, 2.suppress drawing of the row dendrogra
13.7 years ago k. brand ▴ 420
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1
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1.7k
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Comment: C: heatplot() 1. red-*black*-green palette, 2.suppress drawing of the row dendrogra
13.7 years ago k. brand ▴ 420
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6
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1.7k
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heatplot() 1. red-*black*-green palette, 2.suppress drawing of the row dendrogram (but NOT row reordering)
Microarray Microarray
updated 13.7 years ago by 65k • written 13.7 years ago by ▴ 420
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4.5k
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Comment: C: heatmap.2 - change column & row locations; angle / rotate
13.8 years ago k. brand ▴ 420
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3
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4.5k
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heatmap.2 - change column & row locations; angle / rotate
updated 13.8 years ago by ▴ 20 • written 13.8 years ago by ▴ 420
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935
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Answer: A: limma, duplicateCorrelation, dupfit$consensus = 1: concerning?
13.9 years ago k. brand ▴ 420
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1
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935
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limma, duplicateCorrelation, dupfit$consensus = 1: concerning?
13.9 years ago k. brand ▴ 420
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759
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function similar to phyper function that can handle 3 or more gene lists
14.1 years ago k. brand ▴ 420
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Comment: C: package or code to quantify the significance of the venn overlap between 2 or 3
14.1 years ago k. brand ▴ 420
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1.1k
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Comment: C: package or code to quantify the significance of the venn overlap between 2 or 3
14.1 years ago k. brand ▴ 420
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5
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1.1k
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package or code to quantify the significance of the venn overlap between 2 or 3 lists of genes
updated 14.1 years ago by ★ 13k • written 14.1 years ago by ▴ 420
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5
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3.9k
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limma warning: Coefficients not estimable
limma limma
updated 14.2 years ago by 50k • written 14.2 years ago by ▴ 420
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3.9k
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Comment: C: limma warning: Coefficients not estimable
14.2 years ago k. brand ▴ 420
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2.6k
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Comment: C: Parameter names must by syntactically valid names in R
14.2 years ago k. brand ▴ 420
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2
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2.6k
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Parameter names must by syntactically valid names in R
updated 14.2 years ago by ★ 7.4k • written 14.2 years ago by ▴ 420
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0
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812
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Another limma factorial that needs controlling and pairing
limma limma
14.3 years ago k. brand ▴ 420
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1
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879
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default fdr rate in limma/affylmgui
affylmGUI affylmGUI
updated 16.0 years ago by 65k • written 16.0 years ago by ▴ 420
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1
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1.8k
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using simpleaffy incorrectly, or is there a problem with the read.affy function?
Microarray Survival Cancer genefilter affy simpleaffy affyio Microarray Survival Cancer
17.3 years ago k. brand ▴ 420
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Answer: A: using simpleaffy incorrectly, or is there a problem with the read.affy function?
17.3 years ago k. brand ▴ 420
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535
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Has anyone implemented Friedman's Test for AffyBatch?
17.6 years ago k. brand ▴ 420
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1.1k
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Comment: C: "normalize.quantiles.robust" produces the SAME intensities from different weight
17.6 years ago k. brand ▴ 420
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2
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1.1k
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"normalize.quantiles.robust" produces the SAME intensities from different weights?!
Normalization affydata gcrma matchprobes affyPLM affyio Normalization affydata gcrma
updated 17.6 years ago by ★ 1.2k • written 17.6 years ago by ▴ 420
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959
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method for removing consistent technical bias?
affy affydata vsn limma gcrma matchprobes affyPLM affyio affy affydata vsn limma gcrma
17.6 years ago k. brand ▴ 420
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2
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951
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normalize.quantiles.robust: how to implement weights for different arrays?
cdf gcrma matchprobes affyPLM affyio cdf gcrma matchprobes affyPLM affyio
updated 17.6 years ago by ★ 6.5k • written 17.6 years ago by ▴ 420
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0
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933
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4 replicates, of 3 tissues- one good hyb (2xreps), one bad hyb (2xreps). Best way forward?
qPCR affy affydata vsn limma gcrma matchprobes affyPLM affyio BRAIN qPCR affy affydata
17.6 years ago k. brand ▴ 420
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1.7k
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Comment: C: summarizing probe intensites before or after normalization- 1. how to do with RM
17.6 years ago k. brand ▴ 420
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0
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995
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Comment: C: summarizing probe intensites before or after normalization- 1. how to do with RM
17.6 years ago k. brand ▴ 420
0
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3
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995
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summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Normalization probe affy affyio Normalization probe affy affyio
updated 17.6 years ago by ★ 1.2k • written 17.6 years ago by ▴ 420
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