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Recent Replies
Answer: Z score
by
Akash D
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50
I made this. Z scored on log2FC? will anyone support me on this?
3 groups A,B,C
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i.sudbery
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There is no such thing as a fold change of -2. Fold change is
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as expression is a…
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DE with 100s of samples (particulalry if your experiemental design is more complex than 2 condition DE) can stretch consumer grade hardware…
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NTerway
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Thank you for your help! I will try this out. I am trying to implement a collaborator's pipeline on my data and they only use SCE, scran an…
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Once you have the counts any n is possible on a regular analysis-grade laptop or workstation. Even hundreds of samples. It's really the pre…
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You just tell the function to remove the prefix for you. Not on the actual file. Then you can add this information to the SCE, like `sce$da…
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Thank you for your response. I apologize if my understanding is incomplete. I would like to ask: if I have a fold change of -2, how can I c…
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Yeah, a standard 3x3 bulk experiement is very analysable on pretty much most good consumer laptops these days.
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Thanks for the explanation! If I remove the prefix (GSM3972009_69_) then I will lose the sample annotation and cannot track them. I am more…
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The function assumes simply barcodes.tsv(.gz), genes.tsv(.gz) and matrix.mtx(.gz), without additional pre- or suffixes by default. You can …
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Not what you want to hear but it is possible that the Ab data is not good quality as the cellranger message says (assuming everything ran p…
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Bulk RNA-seq is way less intensive in every regard than single-cell. Whatever you buy, be sure it's upgradable, meaning, no Mac :)
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