MultiRepMacsChIPSeq - combine_std_chipstats

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combine_std_chipstats.pl

A script to combine

• Novoalign statistics
• bam_partial_dedup (or bam_umi_dedup) statistics
• bam2wig empirical shift determination
• Macs2 predicted shift determination

It parses this information from standard output and/or error text files from these programs. It will also parse the stderr.txt and stdout.txt files from Pysano job directories. It will write out a single tab-delimited with the numbers. Sample names are the given input file names or directory names.

USAGE:

Pysano directories:
	combine_std_chipstats.pl <outputfile> 1234X1/ 1234X2/ ...

Text files:
	combine_std_chipstats.pl <outputfile> file1.txt file2.txt ...