Input File Formats

Format 1: multi-locus haplotype frequency data

(This format is only used in the visualization)

• variable names correspond to the loci
• order of variables DOES matter
• last column must contain haplotype freqs (name does not matter)
• download a sample file

A        C        B        DRB1     DQB1     EUR
01:01    01:02    15:01    01:01    05:01    0.00006
01:01    01:02    15:01    09:01    03:03    0.00006
01:01    01:02    15:01    13:01    06:03    0.00007
01:01    01:02    27:05    01:01    05:01    0.00016
01:01    01:02    27:05    04:07    03:01    0.00006
01:01    01:02    27:05    08:01    04:02    0.00012
...
74:03    04:01    44:03    07:01    02:01    0.00019

Format 2: pairwise haplotype frequency data

(This is the format used in the asymLD R package)

• variable names are required as listed below
• order of variables does not matter
• order of the loci determines order for plotting
• download a sample file

locus1 locus2 allele1 allele2 haplo.freq
A       C     01:01   07:01   0.07435
A       C     02:01   03:04   0.05002
A       C     03:01   07:02   0.04798
A       C     02:01   05:01   0.04505
A       C     03:01   04:01   0.03341
...
DQB1 DPB1     04:02   05:01   0.00120
DQB1 DPB1     05:02   01:01   0.00111
DQB1 DPB1     05:02   02:01   0.00050