User: joseale2310

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joseale231010
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Posts by joseale2310

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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... Great, thank very much! ...
written 4 months ago by joseale231010
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... I have tried a couple of things more and it seems to be the right conclusion. Thank you very much! I will try with another dataset. Just one more question, was the approach I used with DESeq2 a correct one? I mean, should I try to do the same with another dataset? ...
written 4 months ago by joseale231010
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... I can do that but I do not quite get what implies that assumption. Thanks! ...
written 4 months ago by joseale231010
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... I tried that but unfortunately it does not change the look of the PCA. All my samples are still completely overlapping. Isn't there then a way to modify the design to approach it in a reasonable way? I have tried to take a look at the vignettes on "Model matrix not full rank”, but it seems that my c ...
written 4 months ago by joseale231010
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... Different early developmental stages and I want to check if how my samples reacts to a different media, that is, which stage do they seem to be closer to. I expected that at least the control should be similar to one of the downloaded dataset. Is there any other reasonable way to do this kind of com ...
written 4 months ago by joseale231010
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... From A to F is batch 1. From G to J are my samples (2nd batch). The conditions I wrote above are simplified, but end up being the same. ...
written 4 months ago by joseale231010
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Comment: C: How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... Hi Michael! This is the plot after. You can see a bunch of samples clustered together (G,H,I and J are my samples) https://ibb.co/gmY7CrK ...
written 4 months ago by joseale231010
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How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
... Hi! I was wondering how could I compare an RNA-seq matrix of raw counts that I downloaded from a repository to my own RNA-seq experiment. Specifically, I want to see which samples from the downloaded paper are the closest to my samples. I have tried to combine all samples into one matrix and use DE ...
limma deseq2 combat written 4 months ago by joseale231010 • updated 4 months ago by Michael Love25k

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