Implemented makeDF which uses Rsamtools to read the coverage data directly from the BAM files (per chr), applies the cutoff just like in makeDb, and creates a DataFrame with the data of interest. Tweaked a lot of functions in order to pass R CMD check (technically there is 1 warning left, but that is because the license has yet to be specified). Some of the examples like in getAnnotation, supportedTables had problems and were moved into dontrun calls. Package dependencies were updated and sqldf was slighly modified because the package RpgSQL is no longer in CRAN. All require statements now use quotes in order to pass R CMD check.