User: lykosherdshep

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Posts by lykosherdshep

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Comment: C: difference among tximport scaledTPM, lengthScaledTPM and the original TPM output
... Thank you a lot, I'll try another way to deal with the ucsc data ...
written 7 weeks ago by lykosherdshep0
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Comment: C: difference among tximport scaledTPM, lengthScaledTPM and the original TPM output
... Thanks for your reply, It's terrible to the ucsc data (UCSC Toil RNAseq Recompute ) which only provide a RSEM expected_count with the unit of log2(expected_count+1), so I have to transform it to expected_count because I see DESEq2 want to receive a raw count without any polish. Is there any way to ...
written 7 weeks ago by lykosherdshep0
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Comment: C: difference among tximport scaledTPM, lengthScaledTPM and the original TPM output
... Dear Michael, Sorry for disturbing you now. It seems a little latter for this post, I'm confused of tximport, I want to convert my data to a DESeq2 object, the data is downloaded from site https://xenabrowser.net/datapages/?dataset=TcgaTargetGtex_gene_expected_count&host=https%3A%2F%2Ftoil.xena ...
written 7 weeks ago by lykosherdshep0

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