Make chromosomalPositions dataset into a GRanges object

[Richard Cotton]

From Martin Morgan:

Your package would benefit by more closely integrating with Bioconductor data structures, especially GenomicRanges, Biostrings, and SummarizedExperiment. For instance, the data set chromosomalPositions seems to be a very natural candidate for representation as a GRanges

    makeGRangesFromDataFrame(do.call(rbind, chromosomalPositions),
            start.field="StartPosition", end.field="EndPosition",
                keep.extra.columns=TRUE)

Consider adding functionality to also convert WideSomaLogicData to SummarizedExperiment (the modern version of ExpressionSet)

[Richard Cotton]

I added an as.SummarizedExperiment method. I can't see how Biostrings is useful to us. Use of GenomicRanges still to do.

[Richard Cotton]

Fixed via https://bitbucket.org/graumannlabtools/readat/commits/44bffd75979a2bc11e8caa2a6775201c9a0a884e and https://bitbucket.org/graumannlabtools/readat/commits/171e9e1bbd0d3f3e51a21aca6864f97c868e45f9