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Ram
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I'd say just point to the ChatGPT conversation - there seems to be a feature that lets one link to the conversation. Or, just show a screen…
Comment: Difference between USCS exon coordinates and ensembl
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amy__
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Great thank you, I want to use the coordinates in bedtools to work out the coverage of some genes over those regions - do you think use the…
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I don't think that's possible. A dendrogram is not a per-column annotation, it's a representation of a hierarchically clustered distance ma…
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I've moving this to a comment as "use a different tool with the same requirement" is not an answer to "why is it a requirement"
Comment: calculate p value and associated z score for snp-gene pair
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rheab1230
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Okay, I got it.
Thank you so much for the response.
Can you tell me what should be the range of FDR value to consider for significance?
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I would suggest to directly search articles that have generated (sc)RNA-seq data. I think you would find some high quality studies that pro…
Comment: calculate p value and associated z score for snp-gene pair
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Beta is the effect size (for rs12160750: going from 0 alleles to 1 allele raises the expression by 0.19108 on average). t-stat is the "z-st…
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What does not help you? You can use both tools above to retrieve sequences using command line. Provide a few example accessions and I can s…
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It doesn't help me a lot. But you known if it is possible to do what i want?
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Thank you. But the command already added before. Can you give other way to write the two functions and show the code?
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Is this software from 2006 really still the go-to solution for your problem? You apparently already face problems before even starting wit…
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> but the results gather several transcriptomes in one file and do not indicate how many transcriptomes there is in the file
I do not und…
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I assume you googled the error and excluded the top-levle suggestions such as https://www.biostars.org/p/9503569/#9503639 ?
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UserA
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Thxs a lot! I will try like this!
Comment: Difference between USCS exon coordinates and ensembl
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Yes, BED file, so this is zero-based and on Ensembl Viewer it is 1-based. So that is the reason.
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