Description of create_fstat_input.pl

Use create_fstat_input_FUnix.pl if you are running it on Unix
Use create_fstat_input_FWindows.pl if you are running it on the command prompt in Windows

This scripts takes a textfile containing the following information:
SNP name, SNP number, sample name, population number, Genotype Code 
(i.e. 11 = homozygote for first allele, 22 = homozygote for second allele and 12 = heterozygote)


The file should look like this (tab delimited):
rs10502044	27	HGDP00560	13	22
rs1050305	28	HGDP00560	13	22
rs1050758	29	HGDP00560	13	22
rs1051283	30	HGDP00560	13	22
rs1051741	31	HGDP00560	13	12
rs10519239	32	HGDP00560	13	22
rs1051955	33	HGDP00560	13	22
rs1052972	34	HGDP00560	13	12
rs1053896	35	HGDP00560	13	11
rs1057406	36	HGDP00560	13	12
rs1057803	37	HGDP00560	13	22
rs1064382	38	HGDP00560	13	11
rs1064569	39	HGDP00560	13	11
rs1064981	40	HGDP00560	13	22
rs1065217	41	HGDP00560	13	22
rs10781536	42	HGDP00560	13	11
rs10791740	43	HGDP00560	13	12
rs10794716	44	HGDP00560	13	22
rs10818759	45	HGDP00560	13	22
etc. 

Nothing has to be sorted in the file, the script takes care of that. 
The script converts this file into an input that is suitable for FSTAT, 
it deals with a hundred SNPs at a time, so if you have 360, you get four files to use in FSTAT.


Talk to me if you have any questions, 
Bryndis
