chicAggregateStatistic is a preprocessing tool for chicDifferentialTest. It takes two consecutive viewpoint files and one target file and creates one file containing all locations which should be tested for differential interactions. Either one target file for two consecutive viewpoint files or one target file for all viewpoints is accepted.

usage: chicAggregateStatistic --interactionFile INTERACTIONFILE
                              [--targetFile TARGETFILE]
                              [--outFileName OUTFILENAME] [--threads THREADS]
                              [--help] [--version]

Required arguments

--interactionFile, -if

path to the interaction files which should be used for aggregation of the statistics.

--targetFile, -tf

path to the target files which contains the target regions to prepare data for differential analysis. This is either the target file in the hdf format created by chicSignificantInteractions or a regular, three column bed file.

Optional arguments

--outFileName, -o

File name to save the result (Default: “aggregate_target.hdf”).

Default: “aggregate_target.hdf”

--threads, -t

Number of threads (uses the python multiprocessing module)ist (Default: 4).

Default: 4


show program’s version number and exit