def aggregateWindowsReadCounts( infiles, outfile ):
'''aggregate tag counts for each window.
coverageBed outputs the following columns:
1) Contig
2) Start
3) Stop
4) Name
5) The number of features in A that overlapped (by at least one base pair) the B interval.
6) The number of bases in B that had non-zero coverage from features in A.
7) The length of the entry in B.
8) The fraction of bases in B that had non-zero coverage from features in A.
For bed: use column 5
For bed6: use column 7
For bed12: use column 13
Tiles with no counts will not be output.
'''
PipelineWindows.aggregateWindowsReadCounts( infiles, outfile )
def aggregateWindowsReadCounts( infiles, outfile ):
'''aggregate tag counts for each window.
'''
PipelineWindows.aggregateWindowsReadCounts( infiles, outfile )
