## Parameter file for macs2
## Uses MACS2: https://github.com/taoliu/MACS/
## Useful web site: http://barcwiki.wi.mit.edu/wiki/SOPs/chip_seq_peaks
## Download: https://pypi.python.org/pypi/MACS2
## Command-line sample:
##         macs2 callpeak -t <ChIP.bam> -c <Control.bam> -f BAM -g 1.2e8 -n <test> -B -q 0.01
## Values in <...> reference column titles in targets file
PairSet	Name	Value
modules	NA	NA
software	NA	macs2 callpeak
cores	NA	NA
reference	NA	NA
infile1	-t	<FileName1>
infile1	path	NA
infile2	-c	<FileName2>
infile2	path	NA
outfile1	-n	<FileName1>
outfile1	path	./results/
outfile1	remove	NA
outfile1	append	_macs2
outfile1	outextension	_macs2_peaks.xls
other	NA	-f BAM -g 1.2e8 -B -q 0.01 --nomodel




