This site is to serve as my note-book and to effectively communicate with my students and collaborators. Every now and then, a blog may be of interest to other researchers or teachers. Views in this blog are my own. All rights of research results and findings on this blog are reserved. See also http://youtube.com/c/hongqin @hongqin
Saturday, December 31, 2016
noiseqbio too many false positives
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### code chunk number 33: NOISeq.Rnw:875-877
mynoiseqbio = noiseqbio(mydata, k = 0.5, norm = "n", factor="Zconditions", lc = 1, r = 20, adj = 1.5, plot = FALSE, a0per = 0.9, filter = 1,
# random.seed = 12345,
conditions = c("control","high")
)#this runs 20161230 5:52pm
head(mynoiseqbio@results[[1]])
summary(mynoiseqbio@results[[1]]) #too many false positives
So, I decided that noiseqbio did not give reasonable outcomes. Although, different parameters may yield different results.
For comparison, I tried noiseq, which gave reasonable results.
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