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JACKY
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I see, do you think there is any way to retrieve the uncorrected TPM data? can I undo the corrections and scalings applied to the data?
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I would not even do the trimming. Any differential analysis of case (normal/control) versus anything in TCGA (progressed cancer) is going t…
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You do not need strand information for this as, as I said, strands do not apply in DNA-seq.
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> read-only file system
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No, there is no magic to make data appear where previously there were none.
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> Transcriptomic analysis
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what kind of measurement do you need ? I see one bed file in your description , what are the TWO bed file ?
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Thank you!
And for what regards peaks annotation, how can the tool I'm going to use assign peaks to the correct location without knowing t…
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You can simply use `samtools sort` to get rid of this read group nonsense these Broad institute tools always complain about.
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