/usr/lib/R/site-library/ShortRead/NAMESPACE is in r-bioc-shortread 1.36.0-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 | useDynLib(ShortRead, .registration=TRUE)
import(methods, BiocGenerics, S4Vectors, IRanges,
Biostrings, GenomeInfoDb, GenomicRanges, GenomicAlignments,
Rsamtools, Biobase)
importFrom(BiocParallel, bplapply)
importFrom(grDevices, colorRampPalette, dev.off, jpeg, pdf, png)
importFrom(hwriter, hwrite, hwriteImage)
importFrom(lattice, dotplot, histogram, levelplot, llines, lsegments,
ltext, panel.abline, panel.dotplot, panel.grid,
panel.histogram, panel.levelplot, panel.xyplot,
strip.custom, xyplot)
importFrom(latticeExtra, xyplot.list)
importFrom(stats, approxfun, setNames)
importFrom(utils, capture.output, packageDescription, read.csv,
read.table, Sweave)
exportClassPattern("^.*$")
exportMethods(show, coerce, dim, length, "[", "[<-", "[[", alphabetFrequency,
alphabet, coverage, encoding, narrow, reverse, reverseComplement,
strand, trimLRPatterns, width, append, rbind, "%in%", c, lapply,
sapply)
export(pData, phenoData, varLabels, varMetadata)
exportPattern("^[^\\.]")
S3method(close, ShortReadFile)
S3method(open, ShortReadFile)
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