1. To compile and prepare executable, type:
	make

2. To print a help message on posible options, type:
	./peaks -h

3. To compute threshold value using data from homozygous samples,
type:
	./peaks fileName -t outFileName
Here the sample data is assumed to be in "fileName" and the results of
the values of all the traces are output to "outFileName" (to enable
further statistical analysis of the trace values.

To prepare input file, look at examples A.txt and D.txt. These are tab
delimited versions of the corresponding Excel files. A tab or blank
character is needed at the start of each line (Yuk!). The first line is read
and ignored. After that every 4 consecutive values are assumed to
represent data for one homozygous sample. Make sure there is no blank
line at the end (Yuk, again!).

4. To analyze data from homo- and heterozygous samples, type:
	./peaks fileName -s T -a
Here the sample data is assumed to be in "fileName" and the results
are output to the screen. To send all the output to file OutF, type:
	./peaks fileName -s T -a > OutF

To prepare input file, look at example HoHe.txt. These are tab
delimited versions of the corresponding Excel files. A tab or blank
character is needed at the start of each line (Yuk!). The first line
is read and ignored. After that each line contains 8 tab delimited
numbers followed by a sample name. Again, make sure there is no blank
line at the end.

The results shows the threshold value used, the names and indices of
all the samples read, and the number of homozygous and heterozygous
samples read in. The processing of the homozygous and heterozygous
samples are done separately. For each sample, a list of the homozygous
samples that it shares an allele with is provided. The results
obtained by running HoHe.txt is given in the file ResultsHoHe.txt.
