User: rmendez

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rmendez0
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Posts by rmendez

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Comment: C: gcpapc package fails at bindWidth step
... My bam file DOES NOT have any NT sequences, and YET I have the same error message while using gcapc 1.6.0: cov <- read5endCoverage(BamFile) The cov object: > cov $fwd RleList of length 194 $chr1 integer-Rle of length 248956422 with 1284213 runs Lengths: 17461 1 31808 1 12713 ...
written 24 days ago by rmendez0
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Comment: C: Cannot get TxDb object using makeTxDbFromUCSC in any table:
... Thank you so much James !I had forgotten about the pre-built objects TxDb.Hsapiens.UCSC.hg19. TxDb.Hsapiens.UCSC.hg19.knownGene just worked file. However there seems not to to be any pre-built TxDb.Hsapiens.UCSC.hg19 object for refSeq as in the past, probably due to the recent changes at UCSC. ...
written 19 months ago by rmendez0
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Cannot get TxDb object using makeTxDbFromUCSC in any table:
... Hi, I am trying to generate at TxDb object using makeTxDbFromUCSC function from GenomicFeatures package for hg19 reference genome, and no matter which gene database I use, I always get the following error: hg19.refseq.db <- makeTxDbFromUCSC(genome="hg19", table="knownGene", url="https://genome ...
genomicfeatures software error written 19 months ago by rmendez0 • updated 19 months ago by James W. MacDonald52k

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