{
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  "Package": "gmapR",
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  "License": "Artistic-2.0",
  "Title": "An R interface to the GMAP/GSNAP/GSTRUCT suite",
  "Type": "Package",
  "Author": "Cory Barr, Thomas Wu, Michael Lawrence",
  "Description": "GSNAP and GMAP are a pair of tools to align short-read\ndata written by Tom Wu.  This package provides convenience\nmethods to work with GMAP and GSNAP from within R. In addition,\nit provides methods to tally alignment results on a\nper-nucleotide basis using the bam_tally tool.",
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        "bam_tally,character-method",
        "bam_tally,GmapBamReader-method",
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        "BamTallyParam-class",
        "coerce,BamTallyParam,list-method"
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        "gmap_build,character,GmapGenome-method",
        "gmap_build,DNAStringSet,GmapGenome-method",
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        "genome,GmapGenome-method",
        "getSeq,GmapGenome-method",
        "GmapGenome",
        "GmapGenome-class",
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        "seqinfo,GmapGenome-method",
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        "spliceSites<-",
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        "GmapGenomeDirectory",
        "GmapGenomeDirectory-class",
        "path,GmapGenomeDirectory-method",
        "path,NULL-method"
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        "GmapSnps",
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      "page": "gsnap-methods",
      "title": "Align a Set of Reads Using the GSNAP Aligner",
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        "gsnap-methods"
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