User: Barbara Uszczynska

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7 years, 4 months ago
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10 years, 4 months ago
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Posts by Barbara Uszczynska

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correlation coefficient for microarray biological replicates
... Dear Conductors, Is it better to use Pearson's or Spearman's correlation coefficient to measure the reproducibility among microarray biological replicates? I would be grateful for any hint. Best, B. [[alternative HTML version deleted]] ...
microarray written 7.4 years ago by Barbara Uszczynska60 • updated 7.4 years ago by Sean Davis21k
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Comment: C: probability of a point membership to a certain cluster
... Dear Hector, I would be really grateful if you could give me a hint how to calculate the probabilities for my data. Since is 2d set it's getting quite complicated: M$parameters $Vinv NULL $pro [1] 0.95238095 0.04761905 $mean [,1] [,2] mir.383_1 1.348992 0.7405658 mir.383_3 1. ...
written 7.9 years ago by Barbara Uszczynska60
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Comment: C: probability of a point membership to a certain cluster
... Hi, Thanks for reply. The thing is that z matrix (dataset1MC$z) gives only 1.00, if point is classified to particular cluster: [,1] [,2] NA12043 1.000000e+00 2.608455e-15 NA12249 1.000000e+00 7.784309e-15 NA12264 1.000000e+00 1.664289e-25 NA12234 3.151495e-19 1.000000e+00 NA12236 ...
written 7.9 years ago by Barbara Uszczynska60
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probability of a point membership to a certain cluster
... Dear Conductors, I was wondering if there's any simple way of calculating the probability of a point membership to a certain cluster. I'm using EM algorithm from mclust package to analyse my data. As an output of classification I obtain data grouped into clusters and I can have a matrix whose the e ...
classification written 7.9 years ago by Barbara Uszczynska60 • updated 7.9 years ago by Steve Lianoglou12k
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I did the normalization.
... Dear conductors, I solved the normalization problem on my own. I was mainly using limma package. The data are obtained from 4 home-made oligonucleotide microarrays. They consist of about 800 50-nt-long DNA probes, complementary to the genes known to be implicated in disease development. Fir ...
normalization written 10.4 years ago by Barbara Uszczynska60
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data normalization
... Dear R-Users, I use home-made spotted arrays to do some research contected with alergies. The matrix consist of : 60% of the genes are up-regulated and 40% of genes that are down-regulated and spikes. I didn't use any genes with constant expression. How I should analyse this experiment? According ...
written 10.4 years ago by Barbara Uszczynska60 • updated 10.4 years ago by James W. MacDonald52k

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