User: james.dalgleish

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Posts by james.dalgleish

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Answer: A: TxDb errors in GenomicFeatures package-- cannot load TxDb with standard params f
... It turns out it's an rtracklayer bug. I received the following response on the GenomicFeatures github site: Hi @jamesdalg, Thanks for the report. The error is actually happening in the rtracklayer package. It's easy to reproduce with: library(rtracklayer) session <- browserSession() genome(se ...
written 6 days ago by james.dalgleish10
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possible Rtracklayer issue: TxDb errors in GenomicFeatures package-- cannot load TxDb with standard params from UCSC (issue began last night)
... I've been running code that used this for a long time and it just started breaking last night. Another colleague also is having issues on version 31 of GenomicFeatures. > hg19.refseq.db<-GenomicFeatures::makeTxDbFromUCSC(genome="hg19", table="refGene") Error in names(trackIds) <- sub("^ ", ...
rtracklayer genomicfeatures txdb maketxdbfromucsc maketxdbfrombiomart written 7 days ago by james.dalgleish10 • updated 2 days ago by Michael Lawrence9.8k

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