User: Aleksandra

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Aleksandra0
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Posts by Aleksandra

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Answer: A: locateVariants function does not find an annotation for the locus
... Thank you very much for your explanation. I thought that locateVariants function would describe a variant regardless of the genomic region type. Now I know that it does not cover exons in non-coding genes. It would be helpful if the ExonVariants() function also exists :) Aleksandra ...
written 3 months ago by Aleksandra0
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Answer: A: Why can't I use the same R package to get the same conclusions as the author?
... Did the Author describe which method of data preprocessing was used? If he only wrote that "The raw data were firstly preprocessed using the Affy package in R language [ 12 , 13 ]", it is very imprecise. Did he use rma or mas? Meybe he just used a different preprocessing method than you. ...
written 3 months ago by Aleksandra0
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locateVariants function does not find an annotation for the locus
... Hi, I have a list of loci that I would like to annotate with locateVariants function. However, the function does not annotate some variants I am interested in. Below I put an example for the locus chr5:1599742 (genome hg19). I know from UCSC that there is a gene "LOC728613" and a few transcripts. B ...

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