Box 1: CHPB FILE Format Rules

1.

Reference Genome Only

2.

Weight 2 and 3 SNPs are included with all positions

3.

One file for each chromosome

a.

X and Y get pseudo autosomal region SNPs

b.

Mito is its own file (if they exist on the chip)

c.

Unplaced and NotOn are in a single file

4.

Header of file has:

a.

# Submitter Handle

b.

# Batch Id (chip name):

c.

# Genome Build-Assembly:

d.

# dbSNP Build

e.

# Date created

f.

#Version 1 (This will increment on future file format versions)

5.

Columns are ordered and are defined below:

I.

ss#

II.

rs#

III.

loc_snp_id

IV.

chrom #

V.

chrom_pos (0-based)

VI.

rsToss_orient

VII.

ssTochrom_orient

VIII.

weight

IX.

bitfield (hexadecimal format, lowest order byte first)

6.

File names end in “.chpb”