updated generate_read_numbers to allow for baseline simulation alone
added .gitignore for .DS_Store, .Rhistory, we'll have to take them out when we submit to Bioc
removed .Rhistory
update
Merge pull request #4 from jtleek/master

I added .gitignore which we'll take out when we submit to Bioc. I also allowed baseline simulation in generate_read_numbers