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Recent Replies
Comment: Easy way to find out which allele is minor allele from bed file?
by
bk11
★
2.4k
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?
by
curious
▴
750
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?
by
bk11
★
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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 don't have any experience using `BRAKER2` so I cannot comment, but I would be extra careful about data you find on non-model organisms. T…
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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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Alicia Oshlack has done some cool work on this but even the plots in her papers show that TPMs sometimes overcorrect and the relationship i…
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![The below image contains the code and result also.][1]
[1]: /media/images/96562b96-d508-4f67-96d1-7c71aa17
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