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calculateSummary() has an Roxygen block prefixed with ## rather than #' or ##'. This will presumably keep it from being built into man/.

I just caught it while casual browsing, you might want to grep '^## ' R/*.R the files to look for other examples...

When creating an ExoData, this error can occur:
Error: cannot take a sample larger than the population when 'replace = FALSE'

This seems to be related to the number of reads in the file since reading the file using readGAlignments and sampling a high number of those reads often allow the creation of ExoData without the error.

This package will return subscripting errors when considering chromosomes that contain reads on only one strand (fwd versus rev) and not the other. This is a particular problem when looking at small, unannotated contigs in the dm6 and mm10 genomes.

We circumvent this by importing the BAM files with readGAlignments and then using the reads option in ExoData. Is there a way to fix this so we can use ExoData directly from the filepath?

I'm having trouble generating the ExoData object. When I try generating the object as described in the vignette, I receive the following error:

Error in validObject(.Object) : 
  invalid class "ExoData" object: superclass "GRangesORNULL" not defined in the environment of the object's class

Any help would be greatly appreciated!

Hello,
I am new in the field of data analysis and this is first time I am using R. I am trying to generate Exo data object and every time I am getting following error:

SM001A = ExoData(reads = ex, mc.cores = 2L, verbose = TRUE)
Using 'reads' argument
Keeping reads in object: No
Error: subscript contains invalid names

I am stuck at this error for almost a week now. Please help!