User: amanda.joy.price

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Posts by amanda.joy.price

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Answer: A: subsetting PWMLognBackground object in the PWMEnrich package
... Just wanted to follow up on my own question here with the answer (blame it on lack of sleep): library(PWMEnrich.Hsapiens.background) data(MotifDb.Hsap) subset = MotifDb.Hsap[grep("CTCF", names(MotifDb.Hsap))]   ...
written 17 months ago by amanda.joy.price0
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subsetting PWMLognBackground object in the PWMEnrich package
... Hello, I'd like to subset the PWMLogn.hg19.MotifDb.Hsap object provided in PWMEnrich.Hsapiens.background package used by the PWMEnrich package to a selected list of PWMs. I see there is a page in the PWMEnrich manual about this but it looks to be missing a function. How should I go about doing this ...
pwmenrich written 17 months ago by amanda.joy.price0
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Answer: A: question about subsetting SGSeq results by different categories of splice events
... This is more of an R question: I have a SGVariantCounts object, and I’d like to subset that by “variantType”. I can see the “variantType” column using mcols(sgvc), but I’m not sure how to subset a SGVariantCounts object like you have in your example with a variants object. Sorry for such a basic que ...
written 2.2 years ago by amanda.joy.price0
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question about subsetting SGSeq results by different categories of splice events
... I’m wondering if there is a way to subset the results from the analyzeVariants() function by different categories of splicing events, such as retained introns, Alternative first exons, Alternative last exons, skipped exons, etc.   Thanks for the help,   Amanda ...
sgseq written 2.2 years ago by amanda.joy.price0 • updated 2.2 years ago by Leonard Goldstein80

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