User: sven.schuierer

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Posts by sven.schuierer

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Problem with installation of org.Hs.eg.db
... Hi, I have a problem with installing org.Hs.eg.db: > source("http://bioconductor.org/biocLite.R") Bioconductor version 3.2 (BiocInstaller 1.20.3), ?biocLite for help A new version of Bioconductor is available after installing the most recent version of R; see http://bioconductor.org/install ...
software error org.hs.eg.db written 12 months ago by sven.schuierer0 • updated 12 months ago by Jenny Drnevich1.9k
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Answer: A: quasR - how are exon identifiers for exon counts determined
... Hi Hans-Rudolf, thanks a lot for your answer. Yes, I can get it to work using this approach. Actually, since I do not have EXONSTART or EXONCHROM: > keytypes(txdb) [1] "GENEID" "TXID" "TXNAME" "EXONID" "EXONNAME" "CDSID" "CDSNAME" I do the following: exon.ranges <- exons(tx ...
written 2.9 years ago by sven.schuierer0
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quasR - how are exon identifiers for exon counts determined
... Hi, I have a question concerning the exon identifiers that are used in quasR for the exon counts.I use a GTF file to create a transcript DB: gtfFile <- file.path(project.dir, "exon-pipeline-files", "gtf-files", "ensembl_rna_hs.gtf") chrLen <- scanFaIndex(genomeFile) chrominfo <- data.fr ...
rnaseq quasr exon written 3.0 years ago by sven.schuierer0 • updated 2.9 years ago by Steve Lianoglou12k
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QuasR - importing alignment files from other aligners
... I was wondering whether it is possible to import alignment files from other aligners into quasR (e.g. STAR or Tophat2) in order, for instance, to run qCount on them. ...
quasr written 3.0 years ago by sven.schuierer0 • updated 3.0 years ago by Hotz, Hans-Rudolf380

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