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Recent Replies
Comment: Differential Expression Analysis using DESeq2 in R
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Okay, that shows us the problem, but not what we need to solve it.
But, for instance, are you sure that period after the sample name shou…
Comment: Easy way to find out which allele is minor allele from bed file?
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In the case of MAF = 0.5, I think A1 is still the minor allele. You can check the discussion in this [link][1].
[1]: https://groups.goo…
Comment: Easy way to find out which allele is minor allele from bed file?
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curious
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Yes, but I think the problem is what to do when MAF = 0.5
Answer: Easy way to find out which allele is minor allele from bed file?
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In Plink, A1 is usually a minor allele and A2 a major allele.
.frq (basic allele frequency report)
Produced by --freq.
…
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> Error parsing strand from GFF line
Looking at this error and the listing of files in your directory it looks like you need to `gunzip` t…
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I briefly looked at those genes on a genome browser -- there are a lot of repeat elements in those genes, meaning a lot of counts assigned …
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Thank you for sharing.
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What is `stringie.sh`? Try `./stringtie.sh -h` and then `more stringtie.sh`.
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> I think you should have the right to delete a question you yourself have submitted
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You can copy and paste your code and then use `101010` button in the edit window to format it as text to keep it monospaced.
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I guess this could really depend on the "counting" strategy, the library complexity and possible lane biases.
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Hi dthorbur, thanks for the response. I have run Augustus using Arabidopsis as a species. I would like to know about the suitability of usi…
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