diff --git a/vignettes/regionReport.Rmd b/vignettes/regionReport.Rmd index f8af4e6..0d7e95e 100644 --- a/vignettes/regionReport.Rmd +++ b/vignettes/regionReport.Rmd @@ -70,17 +70,17 @@ library("RefManageR") bib <- c( derfinder = citation("derfinder")[1], regionReport = citation("regionReport")[1], - knitrBootstrap = citation("knitrBootstrap"), - BiocStyle = citation("BiocStyle"), - ggbio = citation("ggbio"), - ggplot2 = citation("ggplot2"), + knitrBootstrap = citation("knitrBootstrap")[1], + BiocStyle = citation("BiocStyle")[1], + ggbio = citation("ggbio")[1], + ggplot2 = citation("ggplot2")[1], knitr = citation("knitr")[3], RefManageR = citation("RefManageR")[1], rmarkdown = citation("rmarkdown")[1], - DT = citation("DT"), + DT = citation("DT")[1], R = citation(), - IRanges = citation("IRanges"), - sessioninfo = citation("sessioninfo"), + IRanges = citation("IRanges")[1], + sessioninfo = citation("sessioninfo")[1], GenomeInfoDb = RefManageR::BibEntry( bibtype = "manual", key = "GenomeInfoDb", @@ -88,18 +88,18 @@ bib <- c( title = "GenomeInfoDb: Utilities for manipulating chromosome and other 'seqname' identifiers", year = 2017, doi = "10.18129/B9.bioc.GenomeInfoDb" ), - GenomicRanges = citation("GenomicRanges"), - biovizBase = citation("biovizBase"), - TxDb.Hsapiens.UCSC.hg19.knownGene = citation("TxDb.Hsapiens.UCSC.hg19.knownGene"), + GenomicRanges = citation("GenomicRanges")[1], + biovizBase = citation("biovizBase")[1], + TxDb.Hsapiens.UCSC.hg19.knownGene = citation("TxDb.Hsapiens.UCSC.hg19.knownGene")[1], derfinderPlot = citation("derfinderPlot")[1], - grid = citation("grid"), - gridExtra = citation("gridExtra"), + grid = citation("grid")[1], + gridExtra = citation("gridExtra")[1], mgcv = citation("mgcv")[1], - RColorBrewer = citation("RColorBrewer"), - whisker = citation("whisker"), + RColorBrewer = citation("RColorBrewer")[1], + whisker = citation("whisker")[1], bumphunter = citation("bumphunter")[1], - pheatmap = citation("pheatmap"), - DESeq2 = citation("DESeq2"), + pheatmap = citation("pheatmap")[1], + DESeq2 = citation("DESeq2")[1], edgeR1 = citation("edgeR")[1], edgeR2 = citation("edgeR")[2], edgeR6 = RefManageR::BibEntry("inbook", @@ -111,7 +111,7 @@ bib <- c( editor = "Datta, Somnath and Nettleton, Dan", publisher = "Springer", location = "New York", pages = "51-74" ), - DEFormats = citation("DEFormats") + DEFormats = citation("DEFormats")[1] ) ```