User: beginner

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beginner0
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Posts by beginner

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Comment: C: LIMMA gives different logFC
... I'm so sorry for disturbing again ...   I used your for loop. It works as long as I don't define lfc, which I need to define, because I'm only interested intwofold changed genes, but since I get different row numbers I cannot combine them to one table. I tried to do it with this method # list.d ...
written 3.2 years ago by beginner0
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Comment: C: LIMMA gives different logFC
... I get this Error in topTable(eFit, number = 10, coef = 1, sort.by = "none", n = Inf) :    unused argument (n = Inf)    ...
written 3.2 years ago by beginner0
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Comment: C: LIMMA gives different logFC
... Regarding collating DE results did you mean it like this : topTable(eFit, number=10, coef=1, sort.by="none", sort.by="none") topTable(eFit, number=10, coef=2, sort.by="none", sort.by="none") ... .. ...   Is there way to tell R to go through all coefficient at once? ...
written 3.2 years ago by beginner0
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Comment: C: LIMMA gives different logFC
... Thank you very much for helping! I found the error :R somehow confused the target, so samples have different targets, which means when i compared them to the control group, the comparison was done to another group > samples <-targetcelfiles$Target > samples [1] "control" "control" "RF" ...
written 3.2 years ago by beginner0
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LIMMA gives different logFC
... Hello, I'm facing serious problem trying to recalculate the results of a given Series from GEO. For better understanding I will just describe the experiment briefly There are 22 samples, two samples are always a replicate. And the first two belong to the control group. I managed to calculate the m ...
limma logfc written 3.2 years ago by beginner0 • updated 3.2 years ago by Aaron Lun24k

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