User: lkianmehr
lkianmehr • 0
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Posts by lkianmehr
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... Hello, I think have problem with writing this command, could you please explain where went wrong exactly with collapseReplicates command?
thanks in advance
gr <- factor(c(rep("Dnmt2_ND", 2), rep("Dnmt2_NF", 2), rep("Dnmt2_HD", 2), rep("Dnmt2_HF", 2)))
colData <- data.frame(group=gr, typ ...
written 7 weeks ago by
lkianmehr • 0
• updated 7 weeks ago by
Michael Love ♦ 19k
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Comment:
C: how do compare with DESeq2
... data points (samples) are projected onto 3D plane. most of smples of 4 groups concentrate together and on PC1 axis, samples of 1 of groups has been separated from each other.
...
written 8 weeks ago by
lkianmehr • 0
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Comment:
C: how do compare with DESeq2
... Hi,
yes, I have. I made 5 groups to compare, as below
gr <- factor(c(rep("WND", 12), rep("DND", 4), rep("WHF", 4), rep("DHF", 4))),
then I made contrast between each two group separately, like this:
dif <- data.frame(results(cds, contrast = c("group", "DHF", "DND")))
and tried to find up ...
written 8 weeks ago by
lkianmehr • 0
• updated 8 weeks ago by
Michael Love ♦ 19k
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... Hello to all,
I am starting to do DGE analysis with DESeq2 with a small example, as a first experiment I am going to compare two groups as example with DESeq2. I have two groups (ND and NF) and there 2 samples in each one (ND1 and ND2 in ND group, NF1 and NF2 in NF group). theses samples are COUNT ...
written 9 weeks ago by
lkianmehr • 0
• updated 9 weeks ago by
Michael Love ♦ 19k
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