arq5x
Add a 'shift' tool.
shift should move an interval left or right by either a fixed number of bases or a specific fraction of a chromosome.
nevermind, it looks like bedtools slop does this anyhow (at least in 2.2.0)
thanks!
Statistics is the grammar of science. Karl Pearson http://en.wikipedia.org/wiki/The_Grammar_of_Science
On Wed, Sep 17, 2014 at 1:36 PM, Aaron Quinlan [email protected] wrote:
Unfortunately, I haven't gotten around to this yet. Sorry!
— Reply to this email directly or view it on GitHub https://github.com/arq5x/bedtools/issues/40#issuecomment-55955829.
eh, I may just use pandas on the bedGraph then ;-)
Statistics is the grammar of science. Karl Pearson http://en.wikipedia.org/wiki/The_Grammar_of_Science
On Wed, Sep 17, 2014 at 2:22 PM, Aaron Quinlan [email protected] wrote:
That is a slightly different op...
— Reply to this email directly or view it on GitHub https://github.com/arq5x/bedtools/issues/40#issuecomment-55962419.
Actually scratch that, I think I will go ahead and pick at the C++ data structures to make it fast and stream-capable. Why not do it right, (more or less) once and for all.
Perhaps, but I see them as fundamentally different. Slop maintains the "center" of the interval and extends the ends in both or either direction. The purpose of shift is to move the interval left or right, but not change its size.
I think I must be a bit bad at choosing verbs for the tools, as some of these cause confusion for many!
could be fun to think of the verb first, then decide what the tool will do:
bedtools cork
bedtools sanction
bedtools advise
etc.