Recombination fraction file


The recombination fraction file is a text file that specifies the recombination fractions for locations in the reference sequences. The file has two columns. The first column is the location and the second column is the recombination fraction.

For example,

16148 0.126
16962 0.186
16978 0.187
17009 0.191
17018 0.207
17045 0.207
17046 0.207
17048 0.207

Note that the first column is not the chromosomal position but is the order in the sequence file. For example, the first line specifies that the 16148th site in the sequence file has the recombination fraction of 0.126.

Related options: -popfile, -recfile