User: seta

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seta930
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930
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Posts by seta

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Answer: A: Negative and positive linkage disequilibrium
... Although it's late, as far as I know, under linkage disequilibrium, haplotypes do not occur at the frequencies expected when the alleles were independent. Positive linkage disequilibrium exists when two alleles occur together on the same haplotype more often than expected, and negative LD exists whe ...
written 20 days ago by seta930
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Comment: C: Please clarify me about countOverlaps()?
... I got it, thank you, igor. ...
written 6 weeks ago by seta930
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Please clarify me about countOverlaps()?
... Hi all, I'm studying some documents about countOverlaps() (I never work with this tool), and come across with the below sentence: "The first run of the countOverlaps()marks the individual reads with running numbers. The reads with the flag one map to a single gene only **and these are mapped to the ...
R rna-seq countoverlaps() written 6 weeks ago by seta930 • updated 6 weeks ago by jomo018250
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Comment: C: Please help to understand the concept of the sentence about cufflinks
... Thank you, I got it. ...
written 7 weeks ago by seta930
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Please help to understand the concept of the sentence about cufflinks
... Hi all, I came across with this sentence about cufflinks: "When it is enabled, Cufflinks learns from the data what sequences were selected for, and re-estimates the abundances with a new likelihood function that takes the sequence-specific bias into account". Could you please help me out to find ...
cufflinks likelihood function rna-seq written 8 weeks ago by seta930 • updated 8 weeks ago by Kevin Blighe12k
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Comment: C: miRNA-seq pipeline in biostar handbook?
... What a pity. Could you please introduce me any pipeline (not web-based) for miRNA-seq analysis? ...
written 9 weeks ago by seta930
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miRNA-seq pipeline in biostar handbook?
... Hi all friends, I'm looking for a complete pipeline for miRNA-seq analysis (not web-based tools). Could you please let me know if the updated Biostar handbook was covered it? Any suggestions and recommendations on the issue would be highly appreciated. Thanks ...
biostar handbook mirna-seq written 9 weeks ago by seta930 • updated 9 weeks ago by Istvan Albert ♦♦ 75k
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(Closed) Third-party library preparation kits
... Hi all, Could you please kindly explain to me what means third-party library preparation kits? Sorry if you find the question is basic. Thanks ...
next-gen sequencing written 3 months ago by seta930 • updated 3 months ago by Devon Ryan76k
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Comment: C: Regarding TMM normalization before DEG analysis by DEGseq
... Thank you for your response. As far as I know, TMM is between-sample normalized count (not break the assumption that you mentioned, please correct me if I'm wrong), and, therefore, more suitable for DE analysis, do you agree with me? However, DEseq or edgeR has internally calculated TMM, but unfortu ...
written 5 months ago by seta930
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Comment: C: Regarding TMM normalization before DEG analysis by DEGseq
... I asked about DEGseq, it differs from DEseq. ...
written 5 months ago by seta930

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